format-version: 1.2 [Term] id: NIF_GrossAnatomy:birnlex_878 namespace: birnlex_anatomy [Term] id: NIF_Molecule:sao1246280606 namespace: birnlex_anatomy disjoint_from: NIF_Subcellular:sao587592318 ! Neurotransmitter receptor role [Term] id: NIF_Molecule:sao26622963 namespace: birnlex_anatomy property_value: nif_annot:hasFormerParentClass "NIF_Molecule:sao500241072" xsd:string property_value: nif_obo_annot:modifiedDate "March 18, 2009" xsd:string [Term] id: NIF_Subcellular:Class_11 name: Parallel fiber namespace: birnlex_anatomy def: "Regional part of a cerebellar granule cell axon referring to the bifurcation of the granule cell axon in the molecular layer into two diametrically opposed branches that are oriented parallel to the long axis of the folium. (adapted from Shepherd, G. M. The synaptic organization of the brain, 5th ed. New York: Oxford University Press, 2004." [] is_a: NIF_Subcellular:nlx_subcell_100307 ! Regional Part Of Granule Cell Axon property_value: http://www.w3.org/2004/02/skos/core#definition "Regional part of a cerebellar granule cell axon referring to the bifurcation of the granule cell axon in the molecular layer into two diametrically opposed branches that are oriented parallel to the long axis of the folium. (adapted from Shepherd, G. M. The synaptic organization of the brain, 5th ed. New York: Oxford University Press, 2004." xsd:string property_value: nif_obo_annot:createdDate "March 17, 2010" xsd:string [Term] id: NIF_Subcellular:FMA_83604 name: Pacinian corpuscle namespace: birnlex_anatomy def: "Encapsulated nerve ending located in skin composed of nerve ending of a dorsal root ganglion neuron wrapped in 20-60 concentric lamellae composed of fibrous tissue and fibroblasts. They function as mechanoreceptors for pressure (adapted from Wikipedia)" [] is_a: NIF_Subcellular:nlx_subcell_20090505 ! Encapsulated nerve ending property_value: http://www.w3.org/2004/02/skos/core#definition "Encapsulated nerve ending located in skin composed of nerve ending of a dorsal root ganglion neuron wrapped in 20-60 concentric lamellae composed of fibrous tissue and fibroblasts. They function as mechanoreceptors for pressure (adapted from Wikipedia)" xsd:string property_value: nif_obo_annot:createdDate "February 23, 2010" xsd:string property_value: nif_obo_annot:definingCitation "Foundational Model of Anatomy" xsd:string [Term] id: NIF_Subcellular:FMA_83605 name: Meissners corpuscle namespace: birnlex_anatomy def: "Meissner's corpuscles are encapsulated nerve endings of dorsal root ganglion cells. They are located in skin, which consist of flattened supportive cells arranged as horizontal lamellae surrounded by a connective tissue capsule, that function as mechanoreceptors for light touch. The corpuscle is between 30-140 μm in length and 40-60 μm in diameter." [] synonym: "Meisner's corpuscle" EXACT [] synonym: "Meisners corpuscle" EXACT [] synonym: "Meissner's corpuscle" EXACT [] synonym: "tactile corpuscle" EXACT [] is_a: NIF_Subcellular:nlx_subcell_20090505 ! Encapsulated nerve ending property_value: http://www.w3.org/2004/02/skos/core#definition "Meissner's corpuscles are encapsulated nerve endings of dorsal root ganglion cells. They are located in skin, which consist of flattened supportive cells arranged as horizontal lamellae surrounded by a connective tissue capsule, that function as mechanoreceptors for light touch. The corpuscle is between 30-140 μm in length and 40-60 μm in diameter." xsd:string property_value: nif_obo_annot:synonym "Meisner's corpuscle" xsd:string property_value: nif_obo_annot:synonym "Meisners corpuscle" xsd:string property_value: nif_obo_annot:synonym "Meissner's corpuscle" xsd:string property_value: nif_obo_annot:synonym "tactile corpuscle" xsd:string [Term] id: NIF_Subcellular:FMA_83606 name: Merkels disc namespace: birnlex_anatomy def: "Encapsulated nerve ending formed by the neurite of a dorsal root ganglion cell in close apposition to a Merkel cell found in the basal layer of glabrous and hairy skin, in hair follicles, and in oral and anal mucosa. The Merkel disc functions as a sensory receptor for pressure and texture information (adapted from Wikipedia)" [] synonym: "Merkel cell-neurite complex" EXACT [] synonym: "Merkel disk receptor" EXACT [] synonym: "Merkel's disc" EXACT [] synonym: "Merkel's disk" EXACT [] is_a: NIF_Subcellular:nlx_subcell_20090505 ! Encapsulated nerve ending property_value: http://www.w3.org/2004/02/skos/core#definition "Encapsulated nerve ending formed by the neurite of a dorsal root ganglion cell in close apposition to a Merkel cell found in the basal layer of glabrous and hairy skin, in hair follicles, and in oral and anal mucosa. The Merkel disc functions as a sensory receptor for pressure and texture information (adapted from Wikipedia)" xsd:string property_value: nif_obo_annot:createdDate "February 23, 2010" xsd:string property_value: nif_obo_annot:definingCitation "Foundational Model of Anatomy" xsd:string property_value: nif_obo_annot:synonym "Merkel cell-neurite complex" xsd:string property_value: nif_obo_annot:synonym "Merkel disk receptor" xsd:string property_value: nif_obo_annot:synonym "Merkel's disc" xsd:string property_value: nif_obo_annot:synonym "Merkel's disk" xsd:string [Term] id: NIF_Subcellular:birnlex_10 name: Constitutional part of cell namespace: birnlex_anatomy is_obsolete: true property_value: dc:contributor "Bill Bug" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "cytoskeletal system" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "post-synaptic density" xsd:string property_value: nif_obo_annot:createdDate "2006-09-07" xsd:string property_value: nif_obo_annot:hasExternalSource "UMLS" xsd:string [Term] id: NIF_Subcellular:birnlex_1142 name: Neuropil namespace: birnlex_anatomy def: "." [nif_obo_annot:MeSH_defSource] is_obsolete: true replaced_by: NIF_Subcellular:sao205380252 ! Neuropil property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Neuropil" xsd:string property_value: nif_annot:hasBirnlexCurator "nif_annot:Maryann_Martone" xsd:string property_value: nif_annot:hasCurationStatus "nif_annot:pending_final_vetting" xsd:string property_value: nif_annot:hasFormerParentClass "NIF_UBO:birnlex_3" xsd:string property_value: nif_annot:isReplacedByClass "NIF_Subcellular:sao205380252" xsd:string property_value: nif_obo_annot:createdDate "2006-07-15" xsd:string property_value: nif_obo_annot:externallySourcedDefinition "Supracellular structure consisting of a dense intricate feltwork of interwoven fine glial processes, fibrils, synaptic terminals, axons, and dendrites interspersed among the nerve cells in the gray matter of the central nervous system." xsd:string property_value: nif_obo_annot:hasDefinitionSource "nif_obo_annot:MeSH_defSource" xsd:string property_value: nif_obo_annot:hasExternalSource "nif_obo_annot:UMLS" xsd:string property_value: nif_obo_annot:modifiedDate "May 15, 2009" xsd:string [Term] id: NIF_Subcellular:birnlex_1152_2 name: Node of Ranvier namespace: birnlex_anatomy def: "Site located at the gaps in the myelin sheaths of myelinated axons. Axon diameter is generally decreased in the nodal region, compared to the internode. Ranvier's nodes allow saltatory conduction, that is, jumping of impulses from node to node, which is faster and more energetically favorable than continuous conduction (MSH)." [] is_a: NIF_Subcellular:sao-596411490 ! Node Related Site property_value: http://www.w3.org/2004/02/skos/core#definition "Site located at the gaps in the myelin sheaths of myelinated axons. Axon diameter is generally decreased in the nodal region, compared to the internode. Ranvier's nodes allow saltatory conduction, that is, jumping of impulses from node to node, which is faster and more energetically favorable than continuous conduction (MSH)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Node of Ranvier" xsd:string property_value: nif_annot:birnlexDefinition "Specialized supracellular structures found in myelinated axons at the gaps between the myelin sheaths. The Node of Ranvier consists of the axonal membrane at the gap, the surrounding myelin processes and additional components such as astrocytic processes or basal lamina, depending upon whether the Node occurs in axons in the peripheral or central nervous system." xsd:string property_value: nif_annot:hasBirnlexCurator "nif_annot:Maryann_Martone" xsd:string property_value: nif_annot:hasCurationStatus "nif_annot:pending_final_vetting" xsd:string property_value: nif_obo_annot:createdDate "2006-07-15" xsd:string property_value: nif_obo_annot:hasExternalSource "nif_obo_annot:UMLS" xsd:string property_value: nif_obo_annot:modifiedDate "2006-09-28" xsd:string [Term] id: NIF_Subcellular:birnlex_13 name: Sample population namespace: birnlex_anatomy is_a: NIF_Subcellular:sao2254405550 ! Population property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Sample population" xsd:string property_value: nif_obo_annot:createdDate "2006-09-07" xsd:string property_value: nif_obo_annot:curator "Bill Bug" xsd:string property_value: nif_obo_annot:modifiedDate "2006-10-09" xsd:string property_value: nif_obo_annot:tempDefinition "A defined subset of a population whose spatio-temporal interactions or aggregate behavior is representative of the whole population." xsd:string [Term] id: NIF_Subcellular:birnlex_2533 name: Principal neuron role namespace: birnlex_anatomy synonym: "Principal neuron" EXACT [] synonym: "Projection neuron" EXACT [] synonym: "Projection neuron role" EXACT [] is_a: NIF_Subcellular:birnlex_2537 ! Functional role of nerve cell disjoint_from: NIF_Subcellular:birnlex_2534 ! Intrinsic neuron role property_value: http://www.w3.org/2004/02/skos/core#example "CA3 Pyramidal neurons are principal neurons projecting out of the CA3 cytoarchitectural part of the hippocampus of vertebrates." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "Cerebellar Purkinje neurons are principal neurons projecting out from the cerebellar cortex of vertebrates." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Principal neuron role" xsd:string property_value: nif_annot:hasBirnlexCurator "nif_annot:Bill_Bug" xsd:string property_value: nif_annot:hasCurationStatus "nif_annot:uncurated" xsd:string property_value: nif_obo_annot:createdDate "2007-08-26" xsd:string property_value: nif_obo_annot:modifiedDate "March 31, 2009" xsd:string property_value: nif_obo_annot:synonym "Principal neuron" xsd:string property_value: nif_obo_annot:synonym "Projection neuron" xsd:string property_value: nif_obo_annot:synonym "Projection neuron role" xsd:string property_value: nif_obo_annot:tempDefinition "A principal projection neuron in a neuronal circuit whose axon extends beyond the region where its soma is located to synapse on the dendrites of cells in other regions of the nervous system (BB)." xsd:string [Term] id: NIF_Subcellular:birnlex_2534 name: Intrinsic neuron role namespace: birnlex_anatomy synonym: "intrinsic neuron" EXACT [] synonym: "local circuit neuron" EXACT [] synonym: "local circuit neuron role" EXACT [] is_a: NIF_Subcellular:birnlex_2537 ! Functional role of nerve cell disjoint_from: NIF_Subcellular:birnlex_2533 ! Principal neuron role property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Intrinsic neuron role" xsd:string property_value: nif_annot:hasBirnlexCurator "nif_annot:Bill_Bug" xsd:string property_value: nif_annot:hasCurationStatus "nif_annot:uncurated" xsd:string property_value: nif_obo_annot:createdDate "2007-08-26" xsd:string property_value: nif_obo_annot:modifiedDate "March 31, 2009" xsd:string property_value: nif_obo_annot:synonym "intrinsic neuron" xsd:string property_value: nif_obo_annot:synonym "local circuit neuron" xsd:string property_value: nif_obo_annot:synonym "local circuit neuron role" xsd:string property_value: nif_obo_annot:tempDefinition "An interneuron participating in aneuronal circuit where all the neurons are bounded within a defined and limited region of the nervous system.(BB)." xsd:string [Term] id: NIF_Subcellular:birnlex_2536 name: Functional role of cell namespace: birnlex_anatomy is_a: NIF_Subcellular:nlx_subcell_090803 ! Cell role property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Functional role of cell" xsd:string property_value: nif_annot:hasBirnlexCurator "nif_annot:Bill_Bug" xsd:string property_value: nif_annot:hasCurationStatus "nif_annot:uncurated" xsd:string property_value: nif_annot:hasFormerParentClass "snap:Role" xsd:string property_value: nif_obo_annot:createdDate "2007-08-25" xsd:string property_value: nif_obo_annot:modifiedDate "August 20, 2009" xsd:string [Term] id: NIF_Subcellular:birnlex_2537 name: Functional role of nerve cell namespace: birnlex_anatomy is_a: NIF_Subcellular:birnlex_2536 ! Functional role of cell property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Functional role of nerve cell" xsd:string property_value: nif_annot:hasBirnlexCurator "nif_annot:Bill_Bug" xsd:string property_value: nif_annot:hasCurationStatus "nif_annot:uncurated" xsd:string property_value: nif_obo_annot:createdDate "2007-08-25" xsd:string property_value: nif_obo_annot:modifiedDate "2007-08-25" xsd:string [Term] id: NIF_Subcellular:birnlex_788 name: Microtubule namespace: birnlex_anatomy is_obsolete: true replaced_by: NIF_Subcellular:sao1846835077 ! Microtubule disjoint_from: NIF_Subcellular:birnlex_879 ! Intermediate filament ! obsolete replaced_by: http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Subcellular.owl#sao952483289 "Intermediate Filament" disjoint_from: NIF_Subcellular:birnlex_888 ! Microfilament ! obsolete replaced_by: http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Subcellular.owl#sao2006047981 "Microfilament" property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Microtubule" xsd:string property_value: nif_annot:hasBirnlexCurator "nif_annot:Maryann_Martone" xsd:string property_value: nif_annot:hasCurationStatus "nif_annot:uncurated" xsd:string property_value: nif_annot:isReplacedByClass "NIF_Subcellular:sao1846835077" xsd:string property_value: nif_obo_annot:createdDate "2006-07-15" xsd:string property_value: nif_obo_annot:hasExternalSource "nif_obo_annot:UMLS" xsd:string property_value: nif_obo_annot:modifiedDate "2006-09-28" xsd:string [Term] id: NIF_Subcellular:birnlex_846 name: Neurofilament namespace: birnlex_anatomy is_obsolete: true replaced_by: NIF_Subcellular:sao1316272517 ! Neurofilament property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Neurofilament" xsd:string property_value: nif_annot:hasBirnlexCurator "nif_annot:BIRN_OTF" xsd:string property_value: nif_annot:hasCurationStatus "nif_annot:uncurated" xsd:string property_value: nif_annot:isReplacedByClass "NIF_Subcellular:sao1316272517" xsd:string property_value: nif_obo_annot:createdDate "2006-07-15" xsd:string property_value: nif_obo_annot:modifiedDate "2006-09-28" xsd:string [Term] id: NIF_Subcellular:birnlex_878 name: Cytoskeletal system namespace: birnlex_anatomy is_obsolete: true replaced_by: NIF_Subcellular:sao1635329413 ! Cytoskeletal Element synonym: "cytoskeleton" EXACT [] property_value: dc:contributor "Maryann Martone" xsd:string property_value: nif_annot:isReplacedByClass "NIF_Subcellular:sao1635329413" xsd:string property_value: nif_obo_annot:createdDate "2006-07-15" xsd:string property_value: nif_obo_annot:modifiedDate "February 18, 2010" xsd:string property_value: nif_obo_annot:synonym "cytoskeleton" xsd:string [Term] id: NIF_Subcellular:birnlex_879 name: Intermediate filament namespace: birnlex_anatomy def: "Cytoskeletal element consisting of elongated structure, characteristically 10 nm in diameter, that occurs in the cytoplasm of higher eukaryotic cells. Intermediate filaments form a fibrous system, composed of chemically heterogeneous subunits and involved in mechanically integrating the various components of the cytoplasmic space. Intermediate filaments may be divided into five chemically distinct classes: keratin filaments of mammalian epithelial cells; desmin filaments found in cells of muscles of all types; vimentin filaments found in mesenchymal cells; neurofilaments of neurons; and glial filaments found in all types of glial cells (Gene Ontology)." [] is_obsolete: true replaced_by: NIF_Subcellular:sao952483289 ! Intermediate Filament disjoint_from: NIF_Subcellular:birnlex_788 ! Microtubule ! obsolete replaced_by: http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Subcellular.owl#sao1846835077 "Microtubule" disjoint_from: NIF_Subcellular:birnlex_888 ! Microfilament ! obsolete replaced_by: http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Subcellular.owl#sao2006047981 "Microfilament" property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Intermediate filament" xsd:string property_value: nif_annot:birnlexDefinition "Cytoskeletal element consisting of elongated structure, characteristically 10 nm in diameter, that occurs in the cytoplasm of higher eukaryotic cells. Intermediate filaments form a fibrous system, composed of chemically heterogeneous subunits and involved in mechanically integrating the various components of the cytoplasmic space. Intermediate filaments may be divided into five chemically distinct classes: keratin filaments of mammalian epithelial cells; desmin filaments found in cells of muscles of all types; vimentin filaments found in mesenchymal cells; neurofilaments of neurons; and glial filaments found in all types of glial cells (Gene Ontology)." xsd:string property_value: nif_annot:hasBirnlexCurator "nif_annot:Maryann_Martone" xsd:string property_value: nif_annot:hasCurationStatus "nif_annot:pending_final_vetting" xsd:string property_value: nif_annot:isReplacedByClass "NIF_Subcellular:sao952483289" xsd:string property_value: nif_obo_annot:createdDate "2006-07-15" xsd:string property_value: nif_obo_annot:hasExternalSource "nif_obo_annot:UMLS" xsd:string property_value: nif_obo_annot:modifiedDate "2006-09-28" xsd:string [Term] id: NIF_Subcellular:birnlex_886 name: Post synaptic density namespace: birnlex_anatomy is_obsolete: true replaced_by: NIF_Subcellular:sao1196688972 ! Post-synaptic Density xref: BONFIRE:BF_C000103 property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Post synaptic density" xsd:string property_value: nif_annot:bonfireID "BF_C000103" xsd:string property_value: nif_annot:hasBirnlexCurator "nif_annot:Maryann_Martone" xsd:string property_value: nif_annot:hasCurationStatus "nif_annot:uncurated" xsd:string property_value: nif_annot:isReplacedByClass "NIF_Subcellular:sao1196688972" xsd:string property_value: nif_obo_annot:createdDate "2006-07-15" xsd:string property_value: nif_obo_annot:modifiedDate "2006-09-28" xsd:string [Term] id: NIF_Subcellular:birnlex_888 name: Microfilament namespace: birnlex_anatomy is_obsolete: true replaced_by: NIF_Subcellular:sao2006047981 ! Microfilament disjoint_from: NIF_Subcellular:birnlex_788 ! Microtubule ! obsolete replaced_by: http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Subcellular.owl#sao1846835077 "Microtubule" disjoint_from: NIF_Subcellular:birnlex_879 ! Intermediate filament ! obsolete replaced_by: http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Subcellular.owl#sao952483289 "Intermediate Filament" property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Microfilament" xsd:string property_value: nif_annot:hasBirnlexCurator "nif_annot:BIRN_OTF" xsd:string property_value: nif_annot:hasCurationStatus "nif_annot:uncurated" xsd:string property_value: nif_annot:isReplacedByClass "NIF_Subcellular:sao2006047981" xsd:string property_value: nif_obo_annot:createdDate "2006-07-15" xsd:string property_value: nif_obo_annot:modifiedDate "2006-09-28" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_090801 name: Glial Inclusion namespace: birnlex_anatomy synonym: "Argyrophilic Glial Inclusion" EXACT [] is_a: NIF_Subcellular:sao120573470 ! Cellular Inclusion property_value: dc:contributor "Jane Bugea" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Glial Inclusion" xsd:string property_value: nif_obo_annot:createdDate "August 11, 2009" xsd:string property_value: nif_obo_annot:synonym "Argyrophilic Glial Inclusion" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_090802 name: Neuronal Cytoplasmic Inclusion namespace: birnlex_anatomy synonym: "NCI" EXACT [] is_a: NIF_Subcellular:sao120573470 ! Cellular Inclusion property_value: dc:contributor "Jane Bugea" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Neuronal Cytoplasmic Inclusion" xsd:string property_value: nif_obo_annot:abbrev "NCI" xsd:string property_value: nif_obo_annot:createdDate "August 11, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_090803 name: Cell role namespace: birnlex_anatomy is_a: snap:Role property_value: nif_obo_annot:createdDate "August 20, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_090901 name: Cajal body namespace: birnlex_anatomy synonym: "Coiled body" EXACT [] xref: GO:GO_0015030 is_a: NIF_Subcellular:sao120573470 ! Cellular Inclusion property_value: dc:contributor "Jane Bugea" xsd:string property_value: nif_annot:gene_Ontology_ID "GO_0015030" xsd:string property_value: nif_obo_annot:createdDate "August 31, 2009" xsd:string property_value: nif_obo_annot:definingCitationURI "http://genetics.cwru.edu/matera3.html" xsd:string property_value: nif_obo_annot:modifiedDate "February 17, 2010" xsd:string property_value: nif_obo_annot:synonym "Coiled body" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_091021 name: Mossy fiber rosette namespace: birnlex_anatomy def: "A synapse of the mossy fiber onto the dendrite of a granule cell; each mossy fiber can have up to 50 rosettes. (source: http://www.neuroanatomy.wisc.edu/cere/text/P4/mossy.htm) (http://en.wikipedia.org/wiki/Mossy_fiber_(cerebellum))" [] is_a: NIF_Subcellular:sao914572699 ! Synapse property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "A synapse of the mossy fiber onto the dendrite of a granule cell; each mossy fiber can have up to 50 rosettes. (source: http://www.neuroanatomy.wisc.edu/cere/text/P4/mossy.htm) (http://en.wikipedia.org/wiki/Mossy_fiber_(cerebellum))" xsd:string property_value: nif_obo_annot:createdDate "October 5, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_100203 name: Grumose foamy spheroid body namespace: birnlex_anatomy def: "Grumose foamy spheroid body is a spheroidal supracellular structure with a foamy appearance in haematoxylin and eosin stains that vary from 10 to 50 microns in diameter and contain amorphous debris-like material found in the brains in certain neurodegenerative conditions." [] is_a: NIF_Subcellular:sao508165343 ! Supra Cellular Structure property_value: http://www.w3.org/2004/02/skos/core#definition "Grumose foamy spheroid body is a spheroidal supracellular structure with a foamy appearance in haematoxylin and eosin stains that vary from 10 to 50 microns in diameter and contain amorphous debris-like material found in the brains in certain neurodegenerative conditions." xsd:string property_value: nif_annot:PMID "PMID: 7477732" xsd:string property_value: nif_obo_annot:createdDate "February 12, 2010" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_100205 name: Blood brain barrier namespace: birnlex_anatomy def: "A supracellular structure formed by tight junctions between capillary endothelial cells in the brain that prevents substances from entering the brain from the vasculature, except by passage of substances through the endothelial cell." [] synonym: "BBB" EXACT [] synonym: "Blood-brain barrier" EXACT [] is_a: NIF_Subcellular:sao508165343 ! Supra Cellular Structure property_value: http://www.w3.org/2004/02/skos/core#definition "A supracellular structure formed by tight junctions between capillary endothelial cells in the brain that prevents substances from entering the brain from the vasculature, except by passage of substances through the endothelial cell." xsd:string property_value: nif_obo_annot:abbrev "BBB" xsd:string property_value: nif_obo_annot:synonym "Blood-brain barrier" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_100206 name: F bouton namespace: birnlex_anatomy def: "Synaptic bouton found in the ventral horn of the spinal cord that range in diameter from 0.5 to 7 um and contain flattened or pleomorphic synaptic vesicles in electron microscopic preparations." [] is_a: NIF_Subcellular:sao187426937 ! Synaptic Bouton property_value: http://www.w3.org/2004/02/skos/core#definition "Synaptic bouton found in the ventral horn of the spinal cord that range in diameter from 0.5 to 7 um and contain flattened or pleomorphic synaptic vesicles in electron microscopic preparations." xsd:string property_value: nif_obo_annot:createdDate "February 23, 2010" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_100207 name: S bouton namespace: birnlex_anatomy def: "Synaptic bouton found in the ventral horn of the spinal cord. S boutons range in size from 0.5 to 8 um in diameter and contain spherical synaptic vesicles, as determined by electron microscopy" [] is_a: NIF_Subcellular:sao187426937 ! Synaptic Bouton property_value: http://www.w3.org/2004/02/skos/core#definition "Synaptic bouton found in the ventral horn of the spinal cord. S boutons range in size from 0.5 to 8 um in diameter and contain spherical synaptic vesicles, as determined by electron microscopy" xsd:string property_value: nif_obo_annot:createdDate "February 23, 2010" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_100208 name: C bouton namespace: birnlex_anatomy def: "Synaptic bouton found in spinal cord on the soma and proximal dendrites of motor neurons" [] is_a: NIF_Subcellular:sao187426937 ! Synaptic Bouton property_value: http://www.w3.org/2004/02/skos/core#definition "Synaptic bouton found in spinal cord on the soma and proximal dendrites of motor neurons" xsd:string property_value: nif_obo_annot:createdDate "February 23, 2010" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_100209 name: Glia limitans namespace: birnlex_anatomy def: "The meshwork of astrocytic foot processes (glial end feet) covered by a basal lamina adjacent to the inner pial surface of the central nervous system." [] synonym: "glial limiting membrane" EXACT [] is_a: NIF_Subcellular:sao508165343 ! Supra Cellular Structure property_value: http://www.w3.org/2004/02/skos/core#definition "The meshwork of astrocytic foot processes (glial end feet) covered by a basal lamina adjacent to the inner pial surface of the central nervous system." xsd:string property_value: nif_obo_annot:createdDate "February 10, 2010" xsd:string property_value: nif_obo_annot:synonym "glial limiting membrane" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_100210 name: Glial scar namespace: birnlex_anatomy def: "Fibrous scar consisting predominately of reactive astrocytes, microglia and extracellular matrix molecules formed after injury to the central nervous system (adapted from Rolls et al., Nature Reviews Neuroscience 10: 235, 2009)" [] is_a: NIF_Subcellular:sao508165343 ! Supra Cellular Structure property_value: http://www.w3.org/2004/02/skos/core#definition "Fibrous scar consisting predominately of reactive astrocytes, microglia and extracellular matrix molecules formed after injury to the central nervous system (adapted from Rolls et al., Nature Reviews Neuroscience 10: 235, 2009)" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_100307 name: Regional Part Of Granule Cell Axon namespace: birnlex_anatomy is_a: NIF_Subcellular:sao280355188 ! Regional Part Of Axon property_value: nif_obo_annot:createdDate "March 17, 2010" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_100312 name: Hippocampal mossy fiber namespace: birnlex_anatomy def: "Axon of dentate gyrus granule cell projecting to hippocampal area CA3, characterized by expansions (mossy fiber expansions) giving the fibers a mossy appearance." [] is_a: NIF_Subcellular:sao1770195789 ! Axon property_value: http://www.w3.org/2004/02/skos/core#definition "Axon of dentate gyrus granule cell projecting to hippocampal area CA3, characterized by expansions (mossy fiber expansions) giving the fibers a mossy appearance." xsd:string property_value: nif_obo_annot:createdDate "March 18, 2010" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_100315 name: Subcellular entity namespace: birnlex_anatomy def: "Entity derived from a cell or cells. The anatomical scale of these objects roughly corresponds to that which would be visible in high resolution light microscopy or conventional electron microscopy, e.g., nanometers to microns. Example: mitochondrion, dendrite, extracellular matrix." [] is_a: snap:MaterialEntity property_value: dc:contributor "Maryann Marotone" xsd:string property_value: http://www.w3.org/2004/02/skos/core#altLabel "subcellular_structure" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Entity derived from a cell or cells. The anatomical scale of these objects roughly corresponds to that which would be visible in high resolution light microscopy or conventional electron microscopy, e.g., nanometers to microns. Example: mitochondrion, dendrite, extracellular matrix." xsd:string property_value: nif_obo_annot:createdDate "March 15, 2010" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090101 name: Bunina Body namespace: birnlex_anatomy def: "Bunina bodies are small eosinphilic granular inclusions that are 1-3 microns in diameter in the anterior horn cells, appearing either singly or in a group. Sometimes they are arranded in small beaded chains. They stain bright red with hematoxylin and eosin (H&E) staining, deep blue with phospotungstic acid hematoxylin and blue with Luxol fast blue. They express cystatin C and consist of electron-dense amorphous material that contains tubules or vesicular structures. The amorphous material frequently includes a cytoplasmis island containing neurofilaments and other micro-organelles." [] is_a: NIF_Subcellular:sao120573470 ! Cellular Inclusion property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Bunina bodies are small eosinphilic granular inclusions that are 1-3 microns in diameter in the anterior horn cells, appearing either singly or in a group. Sometimes they are arranded in small beaded chains. They stain bright red with hematoxylin and eosin (H&E) staining, deep blue with phospotungstic acid hematoxylin and blue with Luxol fast blue. They express cystatin C and consist of electron-dense amorphous material that contains tubules or vesicular structures. The amorphous material frequently includes a cytoplasmis island containing neurofilaments and other micro-organelles." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Bunina Body" xsd:string property_value: nif_obo_annot:createdDate "January 9, 2009" xsd:string property_value: nif_obo_annot:definingCitationID "PMID: 18026741" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090102 name: Pick Body namespace: birnlex_anatomy def: "Pick Bodies are composed of numerous tau fibrils arranged in a disorderly array. Tau protein is a major component. Pick bodies also stain for ubiquitin, alpha-synuclein, and apolipoprotein E." [] is_a: NIF_Subcellular:sao120573470 ! Cellular Inclusion property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Pick Bodies are composed of numerous tau fibrils arranged in a disorderly array. Tau protein is a major component. Pick bodies also stain for ubiquitin, alpha-synuclein, and apolipoprotein E." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Pick Body" xsd:string property_value: nif_obo_annot:createdDate "January 9, 2009" xsd:string property_value: nif_obo_annot:definingCitationID "" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090103 name: Skein-like Inclusion namespace: birnlex_anatomy def: "Skein-like inclusions are intracytoplasmic filamentous structures that are frequently encountered in preparations immunostained for ubiquitin. In H&E preparations (staining with hematoxylin and eosin) they are hardly visible or sometimes detected as faintly eosinophilic structures." [] is_a: NIF_Subcellular:sao120573470 ! Cellular Inclusion property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Skein-like inclusions are intracytoplasmic filamentous structures that are frequently encountered in preparations immunostained for ubiquitin. In H&E preparations (staining with hematoxylin and eosin) they are hardly visible or sometimes detected as faintly eosinophilic structures." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Skein-like Inclusion" xsd:string property_value: nif_obo_annot:createdDate "January 9, 2009" xsd:string property_value: nif_obo_annot:definingCitationID "PMID: 18026741" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090104 name: Hyaline Inclusion namespace: birnlex_anatomy def: "Pale eosinophilic inclusions with halos in H&E (hematoxylin and eosin) preparations." [] is_a: NIF_Subcellular:sao120573470 ! Cellular Inclusion property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Pale eosinophilic inclusions with halos in H&E (hematoxylin and eosin) preparations." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Hyaline Inclusion" xsd:string property_value: nif_obo_annot:createdDate "January 9, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090105 name: Lewy Body-like Hyaline Inclusion namespace: birnlex_anatomy def: "In H&E preparations, neuronal LBHIs show an eosinphilic core with a paler peripheral halo, and their name is derived from their H&E staining features, which resemble those of Lewy bodies in patients with Parkinson's disease. Neuronal Lewy Body-like Hyaline Inclusions consist of filaments and granular materials, exhibit dense cores with rough preipheral halos and lack a limiting membrane. The filaments of these inclusions are composed of approximately 15-25 nm granule-coated fibrils in association with normal 10-nm neurofilaments." [] is_a: NIF_Subcellular:sao120573470 ! Cellular Inclusion property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "In H&E preparations, neuronal LBHIs show an eosinphilic core with a paler peripheral halo, and their name is derived from their H&E staining features, which resemble those of Lewy bodies in patients with Parkinson's disease. Neuronal Lewy Body-like Hyaline Inclusions consist of filaments and granular materials, exhibit dense cores with rough preipheral halos and lack a limiting membrane. The filaments of these inclusions are composed of approximately 15-25 nm granule-coated fibrils in association with normal 10-nm neurofilaments." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Lewy Body-like Hyaline Inclusion" xsd:string property_value: nif_obo_annot:createdDate "January 9, 2009" xsd:string property_value: nif_obo_annot:definingCitation "Kato S. 2008 Amyotrophic lateral sclerosis models and human neuropathology: similarities and differences. Acta Neuropathol 115:97-114. page 101" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090106 name: Transferrin namespace: birnlex_anatomy def: "Transferrin is a blood plasma protein for iron ion delivery which in humans is encoded by the TF gene." [] is_a: NIF_Molecule:sao26622963 property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Transferrin is a blood plasma protein for iron ion delivery which in humans is encoded by the TF gene." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Transferrin" xsd:string property_value: nif_obo_annot:createdDate "January 9, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090201 name: Star-shaped Neurofibrillary Tangle namespace: birnlex_anatomy is_a: NIF_Subcellular:sao2409833926 ! Neurofibrillary Tangle property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Star-shaped Neurofibrillary Tangle" xsd:string property_value: nif_obo_annot:createdDate "February 12, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090202 name: Flame-shaped Neurofibrillary Tangle namespace: birnlex_anatomy is_a: NIF_Subcellular:sao2409833926 ! Neurofibrillary Tangle property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Flame-shaped Neurofibrillary Tangle" xsd:string property_value: nif_obo_annot:createdDate "February 12, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090203 name: Climbing fiber namespace: birnlex_anatomy def: "Axon of inferior olive neuron that projects to the cerebellar cortex, largely via the inferior cerebellar peduncle. They range in diameter from 1-3 um and are myelinated util they enter the granule cell layer. They give off collaterals to the deep cerebellar nuclei. They synapse extensively with the dendrites of Purkinje cells in the molecular layer, where each fiber branches repeatedly to \"climb\" along the Purkinje cell dendritic tree. Each Purkinje cell is innervated by only a single climbing fiber." [] is_a: NIF_Subcellular:sao1770195789 ! Axon property_value: http://www.w3.org/2004/02/skos/core#definition "Axon of inferior olive neuron that projects to the cerebellar cortex, largely via the inferior cerebellar peduncle. They range in diameter from 1-3 um and are myelinated util they enter the granule cell layer. They give off collaterals to the deep cerebellar nuclei. They synapse extensively with the dendrites of Purkinje cells in the molecular layer, where each fiber branches repeatedly to \"climb\" along the Purkinje cell dendritic tree. Each Purkinje cell is innervated by only a single climbing fiber." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Climbing fiber" xsd:string property_value: nif_obo_annot:createdDate "February 12, 2009" xsd:string property_value: nif_obo_annot:definingCitation "Shepherd, G. M. The Synaptic organization of the brain, 5th ed., New York: Oxford University Press, 2004." xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090204 name: Astrocyte Sheath namespace: birnlex_anatomy is_a: NIF_Subcellular:sao1630537580 ! Astrocyte Process property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Astrocyte Sheath" xsd:string property_value: nif_obo_annot:createdDate "February 12, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090205 name: Cytochrome c namespace: birnlex_anatomy def: "A small heme protein found loosely associated with the inner membrane of the mitochondrion." [] is_a: NIF_Molecule:sao26622963 property_value: http://www.w3.org/2004/02/skos/core#definition "A small heme protein found loosely associated with the inner membrane of the mitochondrion." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Cytochrome c" xsd:string property_value: nif_obo_annot:createdDate "February 23, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090206 name: Proteasome namespace: birnlex_anatomy def: "Proteasomes are large protein complexes inside all eukaryotes and archaea, as well as in some bacteria. In eukaryotes, they are located in the nucleus and the cytoplasm." [] is_a: NIF_Molecule:sao26622963 property_value: http://www.w3.org/2004/02/skos/core#definition "Proteasomes are large protein complexes inside all eukaryotes and archaea, as well as in some bacteria. In eukaryotes, they are located in the nucleus and the cytoplasm." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Proteasome" xsd:string property_value: nif_obo_annot:createdDate "February 23, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090207 name: Synaptophysin namespace: birnlex_anatomy def: "Synaptophysin (syp I) is a synaptic vesicle membrane protein" [] is_a: NIF_Molecule:sao26622963 property_value: http://www.w3.org/2004/02/skos/core#definition "Synaptophysin (syp I) is a synaptic vesicle membrane protein" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Synaptophysin" xsd:string property_value: nif_obo_annot:createdDate "February 24, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090208 name: Endoneurial Space namespace: birnlex_anatomy def: "The space occupied by the endoneurium." [] is_a: snap:Site property_value: http://www.w3.org/2004/02/skos/core#definition "The space occupied by the endoneurium." xsd:string property_value: nif_obo_annot:createdDate "February 24, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090209 name: Cerebellar mossy fiber namespace: birnlex_anatomy def: "Axon arising from cerebellar projecting cells in the cochlea, vestibular nuclei, spinal cord, reticular formation, cerebellar nuclei and basilar pontine nuclei. Mossy fibers enter through all three cerebellar peduncles and send collaterals to the deep cerebellar nuclei, then branch in the white matter and terminate in the granule cell layer. Through this branching, a given mossy fiber can innervate several folia. Mossy fibers synapse on granule cells. The synaptic contacts are made at enlargements along the length of the mossy fiber called mossy fiber rosettes. The enlargements of the rosettes give the axons as \"mossy\" appearance in Golgi stained preparations. (adapted from Shepherd, G. M. The synaptic organization of the brain, 5th ed. New York: Oxford University Press, 2004)." [] is_a: NIF_Subcellular:sao1770195789 ! Axon property_value: http://www.w3.org/2004/02/skos/core#definition "Axon arising from cerebellar projecting cells in the cochlea, vestibular nuclei, spinal cord, reticular formation, cerebellar nuclei and basilar pontine nuclei. Mossy fibers enter through all three cerebellar peduncles and send collaterals to the deep cerebellar nuclei, then branch in the white matter and terminate in the granule cell layer. Through this branching, a given mossy fiber can innervate several folia. Mossy fibers synapse on granule cells. The synaptic contacts are made at enlargements along the length of the mossy fiber called mossy fiber rosettes. The enlargements of the rosettes give the axons as \"mossy\" appearance in Golgi stained preparations. (adapted from Shepherd, G. M. The synaptic organization of the brain, 5th ed. New York: Oxford University Press, 2004)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Cerebellar mossy fiber" xsd:string property_value: nif_obo_annot:createdDate "February 27, 2009" xsd:string property_value: nif_obo_annot:definingCitation "Shepherd, G. M. The synaptic organization of the brain, 5th ed. New York: Oxford University Press, 2004" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090210 name: C-fiber namespace: birnlex_anatomy def: "The axon of dorsal root ganglion cells that are responsive to pain and temperature. C-fibers are small in diameter (0.2-1.5 um) and unmyelinated." [] is_a: NIF_Subcellular:sao1770195789 ! Axon property_value: http://www.w3.org/2004/02/skos/core#definition "The axon of dorsal root ganglion cells that are responsive to pain and temperature. C-fibers are small in diameter (0.2-1.5 um) and unmyelinated." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "C-fiber" xsd:string property_value: nif_obo_annot:createdDate "February 27, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090211 name: Calnexin namespace: birnlex_anatomy def: "Calnexin (CNX) is a 90kDa integral protein of the endoplasmic reticulum (ER). It consists of a large (50 kDa) N-terminal calcium-binding lumenal domain, a single transmembrane helix and a short (90 residues), acidic cytoplasmic tail." [] is_a: NIF_Molecule:sao26622963 property_value: http://www.w3.org/2004/02/skos/core#definition "Calnexin (CNX) is a 90kDa integral protein of the endoplasmic reticulum (ER). It consists of a large (50 kDa) N-terminal calcium-binding lumenal domain, a single transmembrane helix and a short (90 residues), acidic cytoplasmic tail." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Calnexin" xsd:string property_value: nif_obo_annot:createdDate "February 27, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090501 name: Triad namespace: birnlex_anatomy def: "Synaptic arrangement observed in thalamic glomeruli consisting of a afferent terminal synapsing on both an interneuron axon terminal and the dendrite of a relay cell. The interneuron terminal also synapses on the dendrite of a relay cell, forming a triadic arrangement." [] is_a: NIF_Subcellular:sao205380252 ! Neuropil property_value: http://www.w3.org/2004/02/skos/core#definition "Synaptic arrangement observed in thalamic glomeruli consisting of a afferent terminal synapsing on both an interneuron axon terminal and the dendrite of a relay cell. The interneuron terminal also synapses on the dendrite of a relay cell, forming a triadic arrangement." xsd:string property_value: nif_obo_annot:createdDate "May 15, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090502 name: Cerebellar glomerulus namespace: birnlex_anatomy is_a: NIF_Subcellular:sao587858733 ! Glomerulus property_value: nif_obo_annot:createdDate "May 16, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090503 name: Olfactory glomerulus namespace: birnlex_anatomy def: "Glomerulus located in the olfactory bulb formed by the incoming axons of olfactory receptor cells synapsing onto the dendritic branches of one or more mitral cells. The olfactory glomerulus is roughly spherical and is partially or wholly encapsulated by glial processes." [] is_a: NIF_Subcellular:sao587858733 ! Glomerulus property_value: dc:contributor "Maryann Martone" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Glomerulus located in the olfactory bulb formed by the incoming axons of olfactory receptor cells synapsing onto the dendritic branches of one or more mitral cells. The olfactory glomerulus is roughly spherical and is partially or wholly encapsulated by glial processes." xsd:string property_value: nif_obo_annot:createdDate "May 16, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090504 name: Thalamic glomerulus namespace: birnlex_anatomy def: "Synaptic structure found in thalamic relay nuclei consising of a complex of afferent terminals, relay cell dendrites, interneuron dendrites and other processes. These complexes are surrounded by astrocytic processes." [] is_a: NIF_Subcellular:sao587858733 ! Glomerulus property_value: http://www.w3.org/2004/02/skos/core#definition "Synaptic structure found in thalamic relay nuclei consising of a complex of afferent terminals, relay cell dendrites, interneuron dendrites and other processes. These complexes are surrounded by astrocytic processes." xsd:string property_value: nif_obo_annot:createdDate "May 16, 2009" xsd:string property_value: nif_obo_annot:definingCitation "Shepherd, G. M. The synaptic organization of the brain, 5th ed New York: Oxford University Press, 2005" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090505 name: Encapsulated nerve ending namespace: birnlex_anatomy def: "Nerve ending found in skin surrounded by layers of connective tissue." [] is_a: NIF_Subcellular:sao508165343 ! Supra Cellular Structure property_value: dc:contributor "Maryann Martone" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Nerve ending found in skin surrounded by layers of connective tissue." xsd:string property_value: nif_obo_annot:createdDate "May 17, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090506 name: Axon bundle namespace: birnlex_anatomy def: "Group of myelinated or unmyelinated axons that group together." [] synonym: "Axon projection" EXACT [] is_a: NIF_Subcellular:nlx_subcell_100315 ! Subcellular entity property_value: dc:contributor "Maryann Martone" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Group of myelinated or unmyelinated axons that group together." xsd:string property_value: nif_annot:hasFormerParentClass "NIF_Subcellular:sao3826089237" xsd:string property_value: nif_obo_annot:createdDate "May 17, 2009" xsd:string property_value: nif_obo_annot:synonym "Axon projection" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090507 name: Ipsilateral associatioinal commissural projection namespace: birnlex_anatomy def: "Group of axons that arises from cells in the dentate gyrus polymorphic layer that terminate on the spines of granule cell dendrites on both the ipsilateral and contralateral sides." [] synonym: "Ipsilateral associational-commissural projection" EXACT [] is_a: NIF_Subcellular:nlx_subcell_20090506 ! Axon bundle property_value: dc:contributor "Maryann Martone" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Group of axons that arises from cells in the dentate gyrus polymorphic layer that terminate on the spines of granule cell dendrites on both the ipsilateral and contralateral sides." xsd:string property_value: nif_obo_annot:createdDate "May 17, 2009" xsd:string property_value: nif_obo_annot:definingCitation "Shepherd, G. M. The synaptic organization of the brain, 5th ed New York: Oxford University Press, 2005" xsd:string property_value: nif_obo_annot:synonym "Ipsilateral associational-commissural projection" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090508 name: Perforant path namespace: birnlex_anatomy def: "Axons arising from multipolar neurons in the entorhinal cortex projecting to the hippocampal formation. The fibers penetrate the hippocampal sulcus to terminate in the dentate gyrus and also project to area CA1 and the subiculum." [] is_a: NIF_Subcellular:nlx_subcell_20090506 ! Axon bundle property_value: dc:contributor "Maryann Martone" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Axons arising from multipolar neurons in the entorhinal cortex projecting to the hippocampal formation. The fibers penetrate the hippocampal sulcus to terminate in the dentate gyrus and also project to area CA1 and the subiculum." xsd:string property_value: nif_obo_annot:createdDate "May 17, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090509 name: Schaffer collaterals namespace: birnlex_anatomy def: "Group of axons arising from hippocampal CA3 pyramidal neurons projecting to area CA1." [] is_a: NIF_Subcellular:nlx_subcell_20090506 ! Axon bundle property_value: dc:contributor "Maryann Martone" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Group of axons arising from hippocampal CA3 pyramidal neurons projecting to area CA1." xsd:string property_value: nif_obo_annot:createdDate "May 17, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090510 name: Regional Part Of Pyramidal cell axon namespace: birnlex_anatomy is_a: NIF_Subcellular:sao280355188 ! Regional Part Of Axon property_value: dc:contributor "Maryann Martone" xsd:string property_value: nif_obo_annot:createdDate "May 19, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090511 name: Schaffer collateral namespace: birnlex_anatomy def: "Part of axon of the CA3 pyramidal neuron that projects to hippocampal area CA1 ." [] is_a: NIF_Subcellular:nlx_subcell_20090510 ! Regional Part Of Pyramidal cell axon relationship: http://www.obofoundry.org/ro/ro.owl#proper_part_of NIF_Subcellular:nlx_subcell_20090509 ! Schaffer collaterals property_value: dc:contributor "Maryann Martone" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Part of axon of the CA3 pyramidal neuron that projects to hippocampal area CA1 ." xsd:string property_value: nif_obo_annot:createdDate "May 19, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090512 name: Motor endplate namespace: birnlex_anatomy def: "Terminal ending of the axon of a motor neuron that forms a synapse onto a muscle cell." [] is_a: NIF_Subcellular:sao187426937 ! Synaptic Bouton relationship: http://www.obofoundry.org/ro/ro.owl#proper_part_of NIF_Subcellular:sao1124888485 ! Neuromuscular Junction property_value: dc:contributor "Maryann Martone" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Terminal ending of the axon of a motor neuron that forms a synapse onto a muscle cell." xsd:string property_value: nif_obo_annot:createdDate "May 19, 2009" xsd:string property_value: nif_obo_annot:modifiedDate "February 23, 2010" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090513 name: Extracellular matrix namespace: birnlex_anatomy def: "A system of insoluble protein fibrils and soluble complexes composed of carbohydrate polymers linked to protein molecules, i.e. proteoglycans, in the extracellular space. Insoluble protein fibrils are mainly of two types: collagen and elastin; the soluble polymers consist of long carbohydrate chains, linked to proteins." [] is_a: NIF_Subcellular:sao9117790637 ! Extracellular Structure property_value: dc:contributor "Maryann Martone" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "A system of insoluble protein fibrils and soluble complexes composed of carbohydrate polymers linked to protein molecules, i.e. proteoglycans, in the extracellular space. Insoluble protein fibrils are mainly of two types: collagen and elastin; the soluble polymers consist of long carbohydrate chains, linked to proteins." xsd:string property_value: nif_obo_annot:createdDate "May 17, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090601 name: Dentate gyrus mossy fiber namespace: birnlex_anatomy def: "The granule cells give rise to distinctive unmyelinated axons referred to as mossy fibers by Ramón y Cajal." [] synonym: "Granule cell axons" EXACT [] is_a: NIF_Subcellular:sao1770195789 ! Axon property_value: dc:contributor "Maryann Martone" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "The granule cells give rise to distinctive unmyelinated axons referred to as mossy fibers by Ramón y Cajal." xsd:string property_value: nif_annot:PMID "PMC2492885" xsd:string property_value: nif_obo_annot:createdDate "June 18, 2009" xsd:string property_value: nif_obo_annot:definingCitation "The dentate gyrus: fundamental neuroanatomical organization (dentate gyrus for dummies) by David G. Amaral, Helen E. Scharfman, and Pierre Lavenex" xsd:string property_value: nif_obo_annot:definingCitationID "PMID PMC2492885" xsd:string property_value: nif_obo_annot:synonym "Granule cell axons" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090701 name: Early Endosome namespace: birnlex_anatomy def: "Small irregularly shaped intracellular vesicles to which endocytosed molecules are initially delivered (GO: 0005769)." [] is_a: NIF_Subcellular:sao1720343330 ! Endosome property_value: http://www.w3.org/2004/02/skos/core#definition "Small irregularly shaped intracellular vesicles to which endocytosed molecules are initially delivered (GO: 0005769)." xsd:string property_value: nif_obo_annot:createdDate "July 14, 2009" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090702 name: Late Endosome namespace: birnlex_anatomy def: "Late endosomes are vesicular structures that accumulate internalized components after their passage through early endosomes (GO: 0005700)." [] is_a: NIF_Subcellular:sao1720343330 ! Endosome property_value: http://www.w3.org/2004/02/skos/core#definition "Late endosomes are vesicular structures that accumulate internalized components after their passage through early endosomes (GO: 0005700)." xsd:string property_value: nif_obo_annot:createdDate "July 14, 2009" xsd:string property_value: nif_obo_annot:definingCitation "Masa H. Sato, Ryosuke L Ohniwa, and Tomohiro Uemura, SNAREs in Plant Endocytosis and the Post-Golgi Traffic, Plant Cell Monogr, September 2005, DOI: 10.1007/7089 012" xsd:string [Term] id: NIF_Subcellular:nlx_subcell_20090703 name: Glial Cytoplasmic Inclusion namespace: birnlex_anatomy is_a: NIF_Subcellular:sao120573470 ! Cellular Inclusion property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Glial Cytoplasmic Inclusion" xsd:string property_value: nif_obo_annot:createdDate "July 14, 2009" xsd:string [Term] id: NIF_Subcellular:sao-1046371754 name: Filopodium namespace: birnlex_anatomy def: "Thin, stiff protrusion extended by the leading edge of a motile cell such as a crawling fibroblast or amoeba, or an axonal growth cone; usually approximately 0.1 um wide, 5-10 um long, can be up to 50 um long in axon growth cones; contains a loose bundle of about 20 actin filaments oriented with their plus ends pointing outward (Gene Ontology)" [] xref: GO:0030175 xref: SAO:sao-1046371754 is_a: NIF_Subcellular:sao-250931889 ! Neuron Protrusion disjoint_from: NIF_Subcellular:sao-961694769 ! Excrescence disjoint_from: NIF_Subcellular:sao1145756102 ! Spine property_value: http://www.w3.org/2004/02/skos/core#definition "Thin, stiff protrusion extended by the leading edge of a motile cell such as a crawling fibroblast or amoeba, or an axonal growth cone; usually approximately 0.1 um wide, 5-10 um long, can be up to 50 um long in axon growth cones; contains a loose bundle of about 20 actin filaments oriented with their plus ends pointing outward (Gene Ontology)" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/filopodium_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Filopodium" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0030175" xsd:string property_value: nif_annot:sao_ID "sao-1046371754" xsd:string [Term] id: NIF_Subcellular:sao-1067215520 name: Schwann Cell Paranodal Termination namespace: birnlex_anatomy def: "Cytoplasmic pockets, or as they appear in thin sections \"loops\" formed by the Schwann cell in the paranodal region. These pockets are actually part of a continuous helical structure providing cytoplasmic continuity from the inntermost to the outermost layers of the myelin sheath through the cytoplasmic channel formed by the loop. Most are directly apposed to the paranodal axonal membrane" [] xref: SAO:sao-1067215520 is_a: NIF_Subcellular:sao-593830697 ! Schwann Cell Myelin Sheath property_value: http://www.w3.org/2004/02/skos/core#definition "Cytoplasmic pockets, or as they appear in thin sections \"loops\" formed by the Schwann cell in the paranodal region. These pockets are actually part of a continuous helical structure providing cytoplasmic continuity from the inntermost to the outermost layers of the myelin sheath through the cytoplasmic channel formed by the loop. Most are directly apposed to the paranodal axonal membrane" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Schwann Cell Paranodal Termination" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao-1067215520" xsd:string [Term] id: NIF_Subcellular:sao-1123256993 name: Schwann Cell Compact Myelin namespace: birnlex_anatomy def: "The portion of the myelin sheath in which layers of cell membrane are tightly juxtaposed, completely excluding cytoplasm. The juxtaposed cytoplasmic surfaces form the major dense line, while the juxtaposed extracellular surfaces form the interperiod line visible in electron micrographs (Gene Ontology)." [] xref: SAO:sao-1123256993 is_a: NIF_Subcellular:sao-593830697 ! Schwann Cell Myelin Sheath property_value: http://www.w3.org/2004/02/skos/core#definition "The portion of the myelin sheath in which layers of cell membrane are tightly juxtaposed, completely excluding cytoplasm. The juxtaposed cytoplasmic surfaces form the major dense line, while the juxtaposed extracellular surfaces form the interperiod line visible in electron micrographs (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Schwann Cell Compact Myelin" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao-1123256993" xsd:string [Term] id: NIF_Subcellular:sao-1337158144 name: Cellular Component namespace: birnlex_anatomy def: "Cell part which has a definable shape, bounded predominantly by bonafide boundaries and is countable (FMA)." [] xref: GO:0005575 is_a: NIF_Subcellular:nlx_subcell_100315 ! Subcellular entity property_value: http://www.w3.org/2004/02/skos/core#definition "Cell part which has a definable shape, bounded predominantly by bonafide boundaries and is countable (FMA)." xsd:string property_value: nif_annot:gene_Ontology_ID "0005575" xsd:string [Term] id: NIF_Subcellular:sao-1348591767 name: Branch Point Of Dendrite namespace: birnlex_anatomy xref: SAO:sao-1348591767 is_a: NIF_Subcellular:sao420754792 ! Regional Part Of Dendrite disjoint_from: NIF_Subcellular:sao1078172392 ! Trunk disjoint_from: NIF_Subcellular:sao28175134 ! Terminal Specialization disjoint_from: NIF_Subcellular:sao884265541 ! Dendritic Branch property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Branch Point Of Dendrite" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao-1348591767" xsd:string [Term] id: NIF_Subcellular:sao-1367457321 name: Mitochondrial Site namespace: birnlex_anatomy xref: SAO:sao-1367457321 is_a: snap:Site disjoint_from: NIF_Subcellular:sao-596411490 ! Node Related Site disjoint_from: NIF_Subcellular:sao1049717962 ! Regional Part Of Neuronal Cell Body disjoint_from: NIF_Subcellular:sao1186862860 ! Basal Pole Of Neuron disjoint_from: NIF_Subcellular:sao1289190043 ! Cellular Space disjoint_from: NIF_Subcellular:sao1299635018 ! Cell Cell Contact Zone disjoint_from: NIF_Subcellular:sao1425028079 ! Extracellular Space disjoint_from: NIF_Subcellular:sao1579007712 ! Cell Interior disjoint_from: NIF_Subcellular:sao1877927224 ! Apical Pole Of Neuron disjoint_from: NIF_Subcellular:sao1922892319 ! Intercellular Junction Site disjoint_from: NIF_Subcellular:sao553711217 ! Spine Related Site property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Mitochondrial Site" xsd:string property_value: nif_annot:sao_ID "sao-1367457321" xsd:string [Term] id: NIF_Subcellular:sao-1488888179 name: Pre-synaptic Ribbon namespace: birnlex_anatomy def: "Dense plate-like structure lying near and perpendicular to the pre-synaptic junction. Usually associated with pre-synaptic vesicles (Peters, Palay, and Webster)." [] xref: SAO:sao-1488888179 is_a: NIF_Subcellular:sao386529203 ! Pre-synaptic Component property_value: http://www.w3.org/2004/02/skos/core#definition "Dense plate-like structure lying near and perpendicular to the pre-synaptic junction. Usually associated with pre-synaptic vesicles (Peters, Palay, and Webster)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/pre-syn_ribbon_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Pre-synaptic Ribbon" xsd:string property_value: nif_annot:sao_ID "sao-1488888179" xsd:string [Term] id: NIF_Subcellular:sao-1686050947 name: Regional Part Of Mitochondrial Membrane namespace: birnlex_anatomy xref: SAO:sao-1686050947 is_a: NIF_Subcellular:sao-1819020575 ! Regional Part Of Cell Component disjoint_from: NIF_Subcellular:sao113580911 ! Regional Part Of Nucleolus disjoint_from: NIF_Subcellular:sao1546288504 ! Regional Part Of Golgi disjoint_from: NIF_Subcellular:sao1682692988 ! Regional Part Of Spine Apparatus disjoint_from: NIF_Subcellular:sao2019617624 ! Regional Part Of RER property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of Mitochondrial Membrane" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao-1686050947" xsd:string [Term] id: NIF_Subcellular:sao-17780464455 name: Intercellular Gap Janction Channel namespace: birnlex_anatomy def: "Junctional complex consisting of two connexons that come together to form a communicating pore between two cells" [] is_a: NIF_Subcellular:sao-3012335077 ! Junction Complex property_value: http://www.w3.org/2004/02/skos/core#definition "Junctional complex consisting of two connexons that come together to form a communicating pore between two cells" xsd:string [Term] id: NIF_Subcellular:sao-1819020575 name: Regional Part Of Cell Component namespace: birnlex_anatomy xref: SAO:sao-1819020575 is_a: NIF_Subcellular:nlx_subcell_100315 ! Subcellular entity disjoint_from: NIF_Subcellular:sao340271629 ! Regional Part Of Cell property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of Cell Component" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao-1819020575" xsd:string [Term] id: NIF_Subcellular:sao-1828894864 name: Cell Process namespace: birnlex_anatomy xref: SAO:sao-1828894864 is_a: NIF_Subcellular:sao340271629 ! Regional Part Of Cell disjoint_from: NIF_Subcellular:sao-82111036 ! Cell Protrusion disjoint_from: NIF_Subcellular:sao864921383 ! Regional Part Of Neuron disjoint_from: NIF_Subcellular:sao895885284 ! Regional Part Of Glial Cell property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Cell Process" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao-1828894864" xsd:string [Term] id: NIF_Subcellular:sao-1863852493 name: Glial Filament namespace: birnlex_anatomy xref: SAO:sao-1863852493 is_a: NIF_Subcellular:sao952483289 ! Intermediate Filament disjoint_from: NIF_Subcellular:sao1316272517 ! Neurofilament property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Glial Filament" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao-1863852493" xsd:string [Term] id: NIF_Subcellular:sao-188049490 name: Node Of Ranvier Axon namespace: birnlex_anatomy def: "Part of axon located at the gaps between adjacent myelin sheaths characterized by a slightly larger diameter than paranodal axon and the presence of a dense coating on the axolemma." [] xref: SAO:sao-188049490 is_a: NIF_Subcellular:sao340271629 ! Regional Part Of Cell disjoint_from: NIF_Subcellular:sao1191319089 ! Juxta Paranode Axon disjoint_from: NIF_Subcellular:sao830092290 ! Internode Axon disjoint_from: NIF_Subcellular:sao936144858 ! Paranode Axon property_value: http://www.w3.org/2004/02/skos/core#definition "Part of axon located at the gaps between adjacent myelin sheaths characterized by a slightly larger diameter than paranodal axon and the presence of a dense coating on the axolemma." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Node Of Ranvier Axon" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:hasFormerParentClass "NIF_Subcellular:sao1791490892" xsd:string property_value: nif_annot:sao_ID "sao-188049490" xsd:string property_value: nif_obo_annot:modifiedDate "May 28, 2009" xsd:string [Term] id: NIF_Subcellular:sao-1899375636 name: Mitochondrial Lumen namespace: birnlex_anatomy def: "Interior portion of mitochondrion bounded by the inner mitochondrial membrane and cristae membranes and containing the mitochondrial matrix. Does not include the crista or crista lumen." [] synonym: "Inner Mitochondrial Compartment (from Peters, Palay, and Webster)" EXACT [] xref: GO:0031980 xref: SAO:sao-1899375636 is_a: NIF_Subcellular:sao-343550527 ! Mitochondrial Space disjoint_from: NIF_Subcellular:sao118944228 ! Mitochondrial Intermembrane Space disjoint_from: NIF_Subcellular:sao508958414 ! Intracristal Space property_value: http://protege.stanford.edu/plugins/owl/protege#subclassesDisjoint "true" xsd:boolean property_value: http://www.w3.org/2004/02/skos/core#definition "Interior portion of mitochondrion bounded by the inner mitochondrial membrane and cristae membranes and containing the mitochondrial matrix. Does not include the crista or crista lumen." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Mitochondrial Lumen" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0031980" xsd:string property_value: nif_annot:sao_ID "sao-1899375636" xsd:string property_value: nif_obo_annot:synonym "Inner Mitochondrial Compartment (from Peters, Palay, and Webster)" xsd:string [Term] id: NIF_Subcellular:sao-206157942 name: Internode namespace: birnlex_anatomy def: "Part of nodal complex located underneath the compact myelin in between nodes of Ranvier" [] xref: SAO:sao-206157942 is_a: NIF_Subcellular:sao-596411490 ! Node Related Site property_value: http://www.w3.org/2004/02/skos/core#definition "Part of nodal complex located underneath the compact myelin in between nodes of Ranvier" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Internode" xsd:string property_value: nif_annot:sao_ID "sao-206157942" xsd:string [Term] id: NIF_Subcellular:sao-234066064 name: Paranode namespace: birnlex_anatomy def: "Region of nodal complex adjacent to the nodal region" [] xref: SAO:sao-234066064 is_a: NIF_Subcellular:sao-596411490 ! Node Related Site property_value: http://www.w3.org/2004/02/skos/core#definition "Region of nodal complex adjacent to the nodal region" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Paranode" xsd:string property_value: nif_annot:sao_ID "sao-234066064" xsd:string [Term] id: NIF_Subcellular:sao-250931889 name: Neuron Protrusion namespace: birnlex_anatomy xref: SAO:sao-250931889 is_a: NIF_Subcellular:sao864921383 ! Regional Part Of Neuron disjoint_from: NIF_Subcellular:sao-420949334 ! Regional Part Of Neuron Process disjoint_from: NIF_Subcellular:sao-867568886 ! Neuron Process disjoint_from: NIF_Subcellular:sao1044911821 ! Neuronal Cell Body disjoint_from: NIF_Subcellular:sao1049717962 ! Regional Part Of Neuronal Cell Body disjoint_from: NIF_Subcellular:sao866168499 ! Regional Part Of Spine property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Neuron Protrusion" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao-250931889" xsd:string [Term] id: NIF_Subcellular:sao-3012335077 name: Junction Complex namespace: birnlex_anatomy is_a: NIF_Subcellular:nlx_subcell_100315 ! Subcellular entity [Term] id: NIF_Subcellular:sao-343550527 name: Mitochondrial Space namespace: birnlex_anatomy def: "Spaces defined by the inner and outer mitochondrial membranes" [] xref: SAO:sao-343550527 is_a: NIF_Subcellular:sao1289190043 ! Cellular Space disjoint_from: NIF_Subcellular:sao1547508851 ! Endosomal Lumen disjoint_from: NIF_Subcellular:sao1819509473 ! RER Lumen disjoint_from: NIF_Subcellular:sao1908934319 ! Intranuclear Membrane Space disjoint_from: NIF_Subcellular:sao1956231674 ! Golgi Lumen disjoint_from: NIF_Subcellular:sao254777664 ! Schmidtt-Lanterman Cleft disjoint_from: NIF_Subcellular:sao797538226 ! Vesicle Lumen disjoint_from: NIF_Subcellular:sao927884761 ! SER Lumen property_value: http://protege.stanford.edu/plugins/owl/protege#subclassesDisjoint "true" xsd:boolean property_value: http://www.w3.org/2004/02/skos/core#definition "Spaces defined by the inner and outer mitochondrial membranes" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Mitochondrial Space" xsd:string property_value: nif_annot:sao_ID "sao-343550527" xsd:string [Term] id: NIF_Subcellular:sao-420949334 name: Regional Part Of Neuron Process namespace: birnlex_anatomy xref: SAO:sao-420949334 is_a: NIF_Subcellular:sao864921383 ! Regional Part Of Neuron disjoint_from: NIF_Subcellular:sao-250931889 ! Neuron Protrusion disjoint_from: NIF_Subcellular:sao-867568886 ! Neuron Process disjoint_from: NIF_Subcellular:sao1044911821 ! Neuronal Cell Body disjoint_from: NIF_Subcellular:sao1049717962 ! Regional Part Of Neuronal Cell Body disjoint_from: NIF_Subcellular:sao866168499 ! Regional Part Of Spine property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of Neuron Process" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao-420949334" xsd:string [Term] id: NIF_Subcellular:sao-593830697 name: Schwann Cell Myelin Sheath namespace: birnlex_anatomy def: "An electrically insulating fatty layer that surrounds the axons of many neurons. It is an outgrowth of glial cells: Schwann cells supply the myelin for peripheral neurons while oligodendrocytes supply it to those of the central nervous system (Gene Ontology)." [] xref: SAO:sao-593830697 is_a: NIF_Subcellular:sao195217619 ! Regional Part Of Schwann Cell property_value: http://www.w3.org/2004/02/skos/core#definition "An electrically insulating fatty layer that surrounds the axons of many neurons. It is an outgrowth of glial cells: Schwann cells supply the myelin for peripheral neurons while oligodendrocytes supply it to those of the central nervous system (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/myelin_sheath_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Schwann Cell Myelin Sheath" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao-593830697" xsd:string [Term] id: NIF_Subcellular:sao-596411490 name: Node Related Site namespace: birnlex_anatomy def: "Site defined with respect to the Node of Ranvier, e.g., node, paranode, juxtaparanode" [] xref: SAO:sao-596411490 is_a: snap:Site disjoint_from: NIF_Subcellular:sao-1367457321 ! Mitochondrial Site disjoint_from: NIF_Subcellular:sao1049717962 ! Regional Part Of Neuronal Cell Body disjoint_from: NIF_Subcellular:sao1186862860 ! Basal Pole Of Neuron disjoint_from: NIF_Subcellular:sao1289190043 ! Cellular Space disjoint_from: NIF_Subcellular:sao1299635018 ! Cell Cell Contact Zone disjoint_from: NIF_Subcellular:sao1425028079 ! Extracellular Space disjoint_from: NIF_Subcellular:sao1579007712 ! Cell Interior disjoint_from: NIF_Subcellular:sao1877927224 ! Apical Pole Of Neuron disjoint_from: NIF_Subcellular:sao1922892319 ! Intercellular Junction Site disjoint_from: NIF_Subcellular:sao553711217 ! Spine Related Site property_value: http://www.w3.org/2004/02/skos/core#definition "Site defined with respect to the Node of Ranvier, e.g., node, paranode, juxtaparanode" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Node Related Site" xsd:string property_value: nif_annot:sao_ID "sao-596411490" xsd:string [Term] id: NIF_Subcellular:sao-699412220 name: Regional Part Of SER namespace: birnlex_anatomy xref: SAO:sao-699412220 is_a: NIF_Subcellular:sao-1819020575 ! Regional Part Of Cell Component property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of SER" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao-699412220" xsd:string [Term] id: NIF_Subcellular:sao-820130069 name: Pyramidal Neuronal Cell Body namespace: birnlex_anatomy xref: SAO:sao-820130069 is_a: NIF_Subcellular:sao1044911821 ! Neuronal Cell Body property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Pyramidal Neuronal Cell Body" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao-820130069" xsd:string [Term] id: NIF_Subcellular:sao-82111036 name: Cell Protrusion namespace: birnlex_anatomy xref: SAO:sao-82111036 is_a: NIF_Subcellular:sao340271629 ! Regional Part Of Cell disjoint_from: NIF_Subcellular:sao-1828894864 ! Cell Process disjoint_from: NIF_Subcellular:sao864921383 ! Regional Part Of Neuron disjoint_from: NIF_Subcellular:sao895885284 ! Regional Part Of Glial Cell property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Cell Protrusion" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao-82111036" xsd:string [Term] id: NIF_Subcellular:sao-867568886 name: Neuron Process namespace: birnlex_anatomy synonym: "Neurite" EXACT [] xref: SAO:sao-867568886 is_a: NIF_Subcellular:sao864921383 ! Regional Part Of Neuron disjoint_from: NIF_Subcellular:sao-250931889 ! Neuron Protrusion disjoint_from: NIF_Subcellular:sao-420949334 ! Regional Part Of Neuron Process disjoint_from: NIF_Subcellular:sao1044911821 ! Neuronal Cell Body disjoint_from: NIF_Subcellular:sao1049717962 ! Regional Part Of Neuronal Cell Body disjoint_from: NIF_Subcellular:sao866168499 ! Regional Part Of Spine property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Neuron Process" xsd:string property_value: nif_annot:sao_ID "sao-867568886" xsd:string property_value: nif_obo_annot:synonym "Neurite" xsd:string [Term] id: NIF_Subcellular:sao-876577163 name: Mushroom Dendritic Spine namespace: birnlex_anatomy xref: SAO:sao-876577163 is_a: NIF_Subcellular:sao1799103720 ! Dendritic Spine disjoint_from: NIF_Subcellular:sao-965204139 ! Branched Dendritic Spine disjoint_from: NIF_Subcellular:sao1232858786 ! Thin Dendritic Spine disjoint_from: NIF_Subcellular:sao1536532595 ! Sessile Dendritic Spine disjoint_from: NIF_Subcellular:sao317384566 ! Stubby Dendritic Spine property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/mush_dend_spine_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Mushroom Dendritic Spine" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao-876577163" xsd:string [Term] id: NIF_Subcellular:sao-946766835 name: Synaptic Site namespace: birnlex_anatomy xref: SAO:sao-946766835 is_a: NIF_Subcellular:sao1922892319 ! Intercellular Junction Site disjoint_from: NIF_Subcellular:sao118541872 ! Gap Junction disjoint_from: NIF_Subcellular:sao1400623473 ! Zonula Adhaerens disjoint_from: NIF_Subcellular:sao1939999134 ! Zonula Occludens disjoint_from: NIF_Subcellular:sao1956738165 ! Macular Adhaerentia disjoint_from: NIF_Subcellular:sao427941916 ! Septate Junction property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Synaptic Site" xsd:string property_value: nif_annot:sao_ID "sao-946766835" xsd:string [Term] id: NIF_Subcellular:sao-961694769 name: Excrescence namespace: birnlex_anatomy xref: SAO:sao-961694769 is_a: NIF_Subcellular:sao-250931889 ! Neuron Protrusion disjoint_from: NIF_Subcellular:sao-1046371754 ! Filopodium disjoint_from: NIF_Subcellular:sao1145756102 ! Spine property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Excrescence" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao-961694769" xsd:string [Term] id: NIF_Subcellular:sao-965204139 name: Branched Dendritic Spine namespace: birnlex_anatomy xref: SAO:sao-965204139 is_a: NIF_Subcellular:sao1799103720 ! Dendritic Spine disjoint_from: NIF_Subcellular:sao-876577163 ! Mushroom Dendritic Spine disjoint_from: NIF_Subcellular:sao1232858786 ! Thin Dendritic Spine disjoint_from: NIF_Subcellular:sao1536532595 ! Sessile Dendritic Spine disjoint_from: NIF_Subcellular:sao317384566 ! Stubby Dendritic Spine property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/branched_dend_spine_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Branched Dendritic Spine" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao-965204139" xsd:string [Term] id: NIF_Subcellular:sao1004601938 name: Dense Material namespace: birnlex_anatomy xref: SAO:sao1004601938 is_a: NIF_Subcellular:sao1682692988 ! Regional Part Of Spine Apparatus property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Dense Material" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1004601938" xsd:string [Term] id: NIF_Subcellular:sao101633890 name: Cytosol namespace: birnlex_anatomy def: "The part of the cytoplasm that does not contain membranous or particulate subcellular components (UMLS)." [] xref: GO:0005829 xref: SAO:sao101633890 xref: UMLS:C0010854 is_a: NIF_Subcellular:sao-1337158144 ! Cellular Component disjoint_from: NIF_Subcellular:sao1081228141 ! Glycogen Granule disjoint_from: NIF_Subcellular:sao11978067 ! Basal Body disjoint_from: NIF_Subcellular:sao120573470 ! Cellular Inclusion disjoint_from: NIF_Subcellular:sao1397492660 ! Basal Lamina disjoint_from: NIF_Subcellular:sao1539965131 ! Organelle disjoint_from: NIF_Subcellular:sao1663586795 ! Plasma Membrane disjoint_from: NIF_Subcellular:sao1784069613 ! Synaptic Component disjoint_from: NIF_Subcellular:sao1938587839 ! Subplasmalemmal Coating disjoint_from: NIF_Subcellular:sao221389602 ! Vesicle disjoint_from: NIF_Subcellular:sao628508602 ! Cellular Subcomponent disjoint_from: NIF_Subcellular:sao730872736 ! Dense Body disjoint_from: NIF_Subcellular:sao787716553 ! Cilium disjoint_from: NIF_Subcellular:sao830981606 ! Intracellular Membrane property_value: http://www.w3.org/2004/02/skos/core#definition "The part of the cytoplasm that does not contain membranous or particulate subcellular components (UMLS)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Cytosol" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005829" xsd:string property_value: nif_annot:sao_ID "sao101633890" xsd:string property_value: nif_annot:umls_ID "C0010854" xsd:string [Term] id: NIF_Subcellular:sao1028571114 name: Sorting Endosome namespace: birnlex_anatomy def: "Multivesicular bodies surrounded by and connected with multiple tubular compartments with associated vesicles. MVB-tubule complexes are posited by Clooney et al. (2002) to correspond to sorting endosomes." [] xref: SAO:sao1028571114 is_a: NIF_Subcellular:sao1720343330 ! Endosome disjoint_from: NIF_Subcellular:sao1570660411 ! Tubular Endosome property_value: http://www.w3.org/2004/02/skos/core#definition "Multivesicular bodies surrounded by and connected with multiple tubular compartments with associated vesicles. MVB-tubule complexes are posited by Clooney et al. (2002) to correspond to sorting endosomes." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Sorting Endosome" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1028571114" xsd:string [Term] id: NIF_Subcellular:sao1036339110 name: Endoplasmic Reticulum namespace: birnlex_anatomy def: "The irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached) (Gene Ontology)." [] xref: GO:0005783 xref: SAO:sao1036339110 xref: UMLS:C0014239 is_a: NIF_Subcellular:sao414196390 ! Membrane Bound Organelle disjoint_from: NIF_Subcellular:sao1702920020 ! Nucleus disjoint_from: NIF_Subcellular:sao1720343330 ! Endosome disjoint_from: NIF_Subcellular:sao1860313010 ! Mitochondrion disjoint_from: NIF_Subcellular:sao2045955158 ! Multivesicular Body disjoint_from: NIF_Subcellular:sao451912436 ! Golgi Apparatus disjoint_from: NIF_Subcellular:sao499555322 ! Peroxisome disjoint_from: NIF_Subcellular:sao585356902 ! Lysosome disjoint_from: NIF_Subcellular:sao725931194 ! Spine Apparatus property_value: http://www.w3.org/2004/02/skos/core#definition "The irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached) (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/er2_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/er_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Endoplasmic Reticulum" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005783" xsd:string property_value: nif_annot:sao_ID "sao1036339110" xsd:string property_value: nif_annot:umls_ID "C0014239" xsd:string [Term] id: NIF_Subcellular:sao1037637579 name: Membrane Cargo namespace: birnlex_anatomy def: "Refers to integral membrane proteins carried via the vesicle membrane." [] xref: SAO:sao1037637579 is_a: NIF_Subcellular:sao1490223249 ! Vesicle Cargo disjoint_from: NIF_Subcellular:sao976831666 ! Lumen Cargo property_value: http://www.w3.org/2004/02/skos/core#definition "Refers to integral membrane proteins carried via the vesicle membrane." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Membrane Cargo" xsd:string property_value: nif_annot:sao_ID "sao1037637579" xsd:string [Term] id: NIF_Subcellular:sao1038025871 name: Polyribosome namespace: birnlex_anatomy def: "A multiribosomal structure representing a linear array of ribosomes held together by messenger RNA. They represent the active complexes in cellular protein synthesis and are able to incorporate amino acids into polypeptides both in vivo and in vitro. (From Rieger et al., Glossary of Genetics: Classical and Molecular, 5th ed) (MSH)." [] xref: SAO:sao1038025871 xref: UMLS:C0032592 is_a: NIF_Subcellular:nlx_subcell_100315 ! Subcellular entity disjoint_from: NIF_Subcellular:sao1747012216 ! Orthogonal Array disjoint_from: NIF_Subcellular:sao445019788 ! Connexon property_value: http://www.w3.org/2004/02/skos/core#definition "A multiribosomal structure representing a linear array of ribosomes held together by messenger RNA. They represent the active complexes in cellular protein synthesis and are able to incorporate amino acids into polypeptides both in vivo and in vitro. (From Rieger et al., Glossary of Genetics: Classical and Molecular, 5th ed) (MSH)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/polyribosome2_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/polyribosome_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Polyribosome" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1038025871" xsd:string property_value: nif_annot:umls_ID "C0032592" xsd:string [Term] id: NIF_Subcellular:sao1039242387 name: Trans Face namespace: birnlex_anatomy def: "The concave side of the Golgi apparatus, from which secretory vesicles emerge (Gene Ontology)." [] xref: GO:0005802 xref: SAO:sao1039242387 is_a: NIF_Subcellular:sao1546288504 ! Regional Part Of Golgi disjoint_from: NIF_Subcellular:sao138219748 ! Vesicular Component disjoint_from: NIF_Subcellular:sao632188024 ! Cis Face disjoint_from: NIF_Subcellular:sao9456487 ! Trans Golgi Network property_value: http://www.w3.org/2004/02/skos/core#definition "The concave side of the Golgi apparatus, from which secretory vesicles emerge (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Trans Face" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005802" xsd:string property_value: nif_annot:sao_ID "sao1039242387" xsd:string [Term] id: NIF_Subcellular:sao1044911821 name: Neuronal Cell Body namespace: birnlex_anatomy def: "Cell body which consists of the plasma membrane and the cytoplasm surrounding the nucleus of the neuron (FMA)." [] synonym: "soma" EXACT [] xref: SAO:sao1044911821 xref: UMLS:C0599444 is_a: NIF_Subcellular:sao864921383 ! Regional Part Of Neuron disjoint_from: NIF_Subcellular:sao-250931889 ! Neuron Protrusion disjoint_from: NIF_Subcellular:sao-420949334 ! Regional Part Of Neuron Process disjoint_from: NIF_Subcellular:sao-867568886 ! Neuron Process disjoint_from: NIF_Subcellular:sao1049717962 ! Regional Part Of Neuronal Cell Body disjoint_from: NIF_Subcellular:sao866168499 ! Regional Part Of Spine property_value: http://www.w3.org/2004/02/skos/core#definition "Cell body which consists of the plasma membrane and the cytoplasm surrounding the nucleus of the neuron (FMA)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Neuronal Cell Body" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1044911821" xsd:string property_value: nif_annot:umls_ID "C0599444" xsd:string property_value: nif_obo_annot:synonym "soma" xsd:string [Term] id: NIF_Subcellular:sao1045389829 name: Mitochondrial Membrane namespace: birnlex_anatomy xref: SAO:sao1045389829 is_a: NIF_Subcellular:sao830981606 ! Intracellular Membrane disjoint_from: NIF_Subcellular:sao1153182838 ! Vesicle Membrane disjoint_from: NIF_Subcellular:sao978443756 ! Endosomal Membrane property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Mitochondrial Membrane" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1045389829" xsd:string [Term] id: NIF_Subcellular:sao1048004962 name: Tyrosine Kinase Receptor namespace: birnlex_anatomy def: "A class of cellular receptors that have an intrinsic protein-tyrosine kinase activity (MSH)." [] xref: SAO:sao1048004962 xref: UMLS:C0206364 is_a: NIF_Subcellular:sao452970150 ! Membrane Receptor disjoint_from: NIF_Subcellular:sao587592318 ! Neurotransmitter receptor role property_value: http://www.w3.org/2004/02/skos/core#definition "A class of cellular receptors that have an intrinsic protein-tyrosine kinase activity (MSH)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Tyrosine Kinase Receptor" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1048004962" xsd:string property_value: nif_annot:umls_ID "C0206364" xsd:string [Term] id: NIF_Subcellular:sao1049471211 name: Interchromatin Granule namespace: birnlex_anatomy def: "A class of nuclear body measuring 20-25 nm in diameter and distributed throughout the interchromatin space, linked together by thin fibrils. They are believed to be storage centers for various snRNAs, snRNPs, serine/arginine-rich proteins and RNA polymerase II. A typical mammalian cell contains 25-50 clusters of interchromatin granules. Interchromatin granule clusters do not contain the heterogeneous nuclear RNA-binding proteins (hnRNPs) (Gene Ontology)." [] xref: GO:0035061 xref: SAO:sao1049471211 xref: UMLS:C0230547 is_a: NIF_Subcellular:sao1499850686 ! Nuclear Subcomponent disjoint_from: NIF_Subcellular:sao1455996588 ! Nuclear Lamina disjoint_from: NIF_Subcellular:sao1571698684 ! Barr Body disjoint_from: NIF_Subcellular:sao1615953555 ! Chromatin disjoint_from: NIF_Subcellular:sao1687101204 ! Nuclear Membrane disjoint_from: NIF_Subcellular:sao1820400233 ! Nucleolus disjoint_from: NIF_Subcellular:sao220861693 ! Nuclear Pore disjoint_from: NIF_Subcellular:sao505137457 ! Nuclear Body disjoint_from: NIF_Subcellular:sao661522542 ! Nucleoplasm property_value: http://www.w3.org/2004/02/skos/core#definition "A class of nuclear body measuring 20-25 nm in diameter and distributed throughout the interchromatin space, linked together by thin fibrils. They are believed to be storage centers for various snRNAs, snRNPs, serine/arginine-rich proteins and RNA polymerase II. A typical mammalian cell contains 25-50 clusters of interchromatin granules. Interchromatin granule clusters do not contain the heterogeneous nuclear RNA-binding proteins (hnRNPs) (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Interchromatin Granule" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0035061" xsd:string property_value: nif_annot:sao_ID "sao1049471211" xsd:string property_value: nif_annot:umls_ID "C0230547" xsd:string [Term] id: NIF_Subcellular:sao1049717962 name: Regional Part Of Neuronal Cell Body namespace: birnlex_anatomy xref: SAO:sao1049717962 is_a: NIF_Subcellular:sao864921383 ! Regional Part Of Neuron disjoint_from: NIF_Subcellular:sao-1367457321 ! Mitochondrial Site disjoint_from: NIF_Subcellular:sao-250931889 ! Neuron Protrusion disjoint_from: NIF_Subcellular:sao-420949334 ! Regional Part Of Neuron Process disjoint_from: NIF_Subcellular:sao-596411490 ! Node Related Site disjoint_from: NIF_Subcellular:sao-867568886 ! Neuron Process disjoint_from: NIF_Subcellular:sao1044911821 ! Neuronal Cell Body disjoint_from: NIF_Subcellular:sao1186862860 ! Basal Pole Of Neuron disjoint_from: NIF_Subcellular:sao1289190043 ! Cellular Space disjoint_from: NIF_Subcellular:sao1299635018 ! Cell Cell Contact Zone disjoint_from: NIF_Subcellular:sao1425028079 ! Extracellular Space disjoint_from: NIF_Subcellular:sao1579007712 ! Cell Interior disjoint_from: NIF_Subcellular:sao1877927224 ! Apical Pole Of Neuron disjoint_from: NIF_Subcellular:sao1922892319 ! Intercellular Junction Site disjoint_from: NIF_Subcellular:sao553711217 ! Spine Related Site disjoint_from: NIF_Subcellular:sao866168499 ! Regional Part Of Spine property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of Neuronal Cell Body" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1049717962" xsd:string [Term] id: NIF_Subcellular:sao1071221672 name: Synaptic Vesicle namespace: birnlex_anatomy def: "Secretory organelles, some 50 nm in diameter, of pre-synaptic nerve terminals; accumulate high concentrations of neurotransmitters and secrete these into the synaptic cleft by fusion with the 'active zone' of the pre-synaptic plasma membrane (Gene Ontology)." [] xref: GO:0008021 xref: SAO:sao1071221672 xref: UMLS:C0039065 is_a: NIF_Subcellular:sao180601769 ! Cytoplasmic Vesicle disjoint_from: NIF_Subcellular:sao1362520468 ! Endocytic Vesicle disjoint_from: NIF_Subcellular:sao478230652 ! Granular Vesicle disjoint_from: NIF_Subcellular:sao577473346 ! Vesicle Other disjoint_from: NIF_Subcellular:sao885490876 ! Transport Vesicle property_value: http://www.w3.org/2004/02/skos/core#definition "Secretory organelles, some 50 nm in diameter, of pre-synaptic nerve terminals; accumulate high concentrations of neurotransmitters and secrete these into the synaptic cleft by fusion with the 'active zone' of the pre-synaptic plasma membrane (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/syn_vesicles_2_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/syn_vesicles_3_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/syn_vesicles_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Synaptic Vesicle" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0008021" xsd:string property_value: nif_annot:sao_ID "sao1071221672" xsd:string property_value: nif_annot:umls_ID "C0039065" xsd:string [Term] id: NIF_Subcellular:sao1074198261 name: Post-synaptic Site namespace: birnlex_anatomy xref: SAO:sao1074198261 is_a: NIF_Subcellular:sao-946766835 ! Synaptic Site property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Post-synaptic Site" xsd:string property_value: nif_annot:sao_ID "sao1074198261" xsd:string [Term] id: NIF_Subcellular:sao1078172392 name: Trunk namespace: birnlex_anatomy xref: SAO:sao1078172392 is_a: NIF_Subcellular:sao420754792 ! Regional Part Of Dendrite disjoint_from: NIF_Subcellular:sao-1348591767 ! Branch Point Of Dendrite disjoint_from: NIF_Subcellular:sao28175134 ! Terminal Specialization disjoint_from: NIF_Subcellular:sao884265541 ! Dendritic Branch property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Trunk" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1078172392" xsd:string [Term] id: NIF_Subcellular:sao1079900774 name: Basilar Dendrite namespace: birnlex_anatomy synonym: "Basal Dendrite" EXACT [] xref: SAO:sao1079900774 is_a: NIF_Subcellular:sao1211023249 ! Dendrite disjoint_from: NIF_Subcellular:sao273773228 ! Apical Dendrite property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Basilar Dendrite" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1079900774" xsd:string property_value: nif_obo_annot:synonym "Basal Dendrite" xsd:string [Term] id: NIF_Subcellular:sao1081228141 name: Glycogen Granule namespace: birnlex_anatomy def: "Cytoplasmic bead-like structures of animal cells, visible by electron microscope. Each granule is a functional unit with the biosynthesis and catabolism of glycogen being catalyzed by enzymes bound to the granule surface (Gene Ontology). Appears as small, electron dense particles 20-40 nm in diameter. Glycogen is difficult to fix in vivo so amounts may be underestimated (Peters, Palay and Webster)." [] xref: GO:0042587 xref: SAO:sao1081228141 xref: UMLS:C0017911 is_a: NIF_Subcellular:sao-1337158144 ! Cellular Component disjoint_from: NIF_Subcellular:sao101633890 ! Cytosol disjoint_from: NIF_Subcellular:sao11978067 ! Basal Body disjoint_from: NIF_Subcellular:sao120573470 ! Cellular Inclusion disjoint_from: NIF_Subcellular:sao1397492660 ! Basal Lamina disjoint_from: NIF_Subcellular:sao1539965131 ! Organelle disjoint_from: NIF_Subcellular:sao1635329413 ! Cytoskeletal Element disjoint_from: NIF_Subcellular:sao1663586795 ! Plasma Membrane disjoint_from: NIF_Subcellular:sao1784069613 ! Synaptic Component disjoint_from: NIF_Subcellular:sao1938587839 ! Subplasmalemmal Coating disjoint_from: NIF_Subcellular:sao1969557946 ! Coated Pit disjoint_from: NIF_Subcellular:sao221389602 ! Vesicle disjoint_from: NIF_Subcellular:sao628508602 ! Cellular Subcomponent disjoint_from: NIF_Subcellular:sao730872736 ! Dense Body disjoint_from: NIF_Subcellular:sao787716553 ! Cilium disjoint_from: NIF_Subcellular:sao830981606 ! Intracellular Membrane property_value: http://www.w3.org/2004/02/skos/core#definition "Cytoplasmic bead-like structures of animal cells, visible by electron microscope. Each granule is a functional unit with the biosynthesis and catabolism of glycogen being catalyzed by enzymes bound to the granule surface (Gene Ontology). Appears as small, electron dense particles 20-40 nm in diameter. Glycogen is difficult to fix in vivo so amounts may be underestimated (Peters, Palay and Webster)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/glycogen_granule_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Glycogen Granule" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0042587" xsd:string property_value: nif_annot:sao_ID "sao1081228141" xsd:string property_value: nif_annot:umls_ID "C0017911" xsd:string [Term] id: NIF_Subcellular:sao109906988 name: Pinceau Fiber namespace: birnlex_anatomy def: "Dense plexus formed by the descending collaterals of cerebellar basket cells tha wrap around the Purkinje cell axonal initial segment." [] xref: SAO:sao109906988 is_a: NIF_Subcellular:sao1586851177 ! Regional Part Of Basket cell axon disjoint_from: NIF_Subcellular:sao413722576 ! Peri Cellular Basket property_value: http://www.w3.org/2004/02/skos/core#definition "Dense plexus formed by the descending collaterals of cerebellar basket cells tha wrap around the Purkinje cell axonal initial segment." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Pinceau Fiber" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao109906988" xsd:string [Term] id: NIF_Subcellular:sao110773650 name: Dendritic Microtubule namespace: birnlex_anatomy xref: SAO:sao110773650 is_a: NIF_Subcellular:sao1846835077 ! Microtubule disjoint_from: NIF_Subcellular:sao1872343973 ! Microtubule Fascicle disjoint_from: NIF_Subcellular:sao248349196 ! Neurotubule property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Dendritic Microtubule" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao110773650" xsd:string [Term] id: NIF_Subcellular:sao1111202255 name: Pre-synaptic Dense Body namespace: birnlex_anatomy def: "Electron dense structure anchored to the presynaptic membrane closely associated with large numbers of synaptic vesicles, which appear to be tethered to the dense body by several short filaments (from Parsons and Sterling, 2003)." [] synonym: "ribbon" EXACT [] xref: SAO:sao1111202255 is_a: NIF_Subcellular:sao386529203 ! Pre-synaptic Component disjoint_from: NIF_Subcellular:sao1730664005 ! Pre-synaptic Grid property_value: http://www.w3.org/2004/02/skos/core#definition "Electron dense structure anchored to the presynaptic membrane closely associated with large numbers of synaptic vesicles, which appear to be tethered to the dense body by several short filaments (from Parsons and Sterling, 2003)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Pre-synaptic Dense Body" xsd:string property_value: nif_annot:sao_ID "sao1111202255" xsd:string property_value: nif_obo_annot:synonym "ribbon" xsd:string [Term] id: NIF_Subcellular:sao1122901839 name: Dark Material namespace: birnlex_anatomy def: "Irregularly shaped clumps of denatured or misfolded proteins observed in some neurons after a period of ischemia that stain heavily with osmium in electon microscopic preparations." [] xref: SAO:sao1122901839 is_a: NIF_Subcellular:sao7016027781 ! Protein Aggregate property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Irregularly shaped clumps of denatured or misfolded proteins observed in some neurons after a period of ischemia that stain heavily with osmium in electon microscopic preparations." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Dark Material" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1122901839" xsd:string [Term] id: NIF_Subcellular:sao1124888485 name: Neuromuscular Junction namespace: birnlex_anatomy def: "The junction between the axon of a motor neuron and a muscle fiber. In response to the arrival of action potentials, the presynaptic button releases molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane of the muscle fiber, leading to a post-synaptic potential responsible of the muscle contraction (Gene Ontology)." [] synonym: "NMJ" EXACT [] xref: GO:0031594 xref: SAO:sao1124888485 is_a: NIF_Subcellular:sao289211478 ! Chemical Synapse property_value: http://www.w3.org/2004/02/skos/core#definition "The junction between the axon of a motor neuron and a muscle fiber. In response to the arrival of action potentials, the presynaptic button releases molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane of the muscle fiber, leading to a post-synaptic potential responsible of the muscle contraction (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Neuromuscular Junction" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0031594" xsd:string property_value: nif_annot:sao_ID "sao1124888485" xsd:string property_value: nif_obo_annot:abbrev "NMJ" xsd:string [Term] id: NIF_Subcellular:sao113580911 name: Regional Part Of Nucleolus namespace: birnlex_anatomy xref: SAO:sao113580911 is_a: NIF_Subcellular:sao-1819020575 ! Regional Part Of Cell Component disjoint_from: NIF_Subcellular:sao-1686050947 ! Regional Part Of Mitochondrial Membrane disjoint_from: NIF_Subcellular:sao1546288504 ! Regional Part Of Golgi disjoint_from: NIF_Subcellular:sao1682692988 ! Regional Part Of Spine Apparatus disjoint_from: NIF_Subcellular:sao2019617624 ! Regional Part Of RER property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of Nucleolus" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao113580911" xsd:string [Term] id: NIF_Subcellular:sao1139385046 name: Free Ribosome namespace: birnlex_anatomy xref: SAO:sao1139385046 is_a: NIF_Subcellular:sao1429207766 ! Ribosome disjoint_from: NIF_Subcellular:sao1291545653 ! Membrane Bound Ribosome property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Free Ribosome" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1139385046" xsd:string [Term] id: NIF_Subcellular:sao1140587416 name: Primary Lysosome namespace: birnlex_anatomy def: "A lysosome before it has fused with a vesicle or vacuole (Gene Ontology)." [] xref: GO:0005766 xref: SAO:sao1140587416 xref: UMLS:C0230814 is_a: NIF_Subcellular:sao585356902 ! Lysosome disjoint_from: NIF_Subcellular:sao1549842807 ! Secondary Lysosome property_value: http://www.w3.org/2004/02/skos/core#definition "A lysosome before it has fused with a vesicle or vacuole (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Primary Lysosome" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005766" xsd:string property_value: nif_annot:sao_ID "sao1140587416" xsd:string property_value: nif_annot:umls_ID "C0230814" xsd:string [Term] id: NIF_Subcellular:sao1145756102 name: Spine namespace: birnlex_anatomy xref: SAO:sao1145756102 is_a: NIF_Subcellular:sao-250931889 ! Neuron Protrusion relationship: http://www.obofoundry.org/ro/ro.owl#has_proper_part NIF_Subcellular:sao553737851 ! Spinule disjoint_from: NIF_Subcellular:sao-1046371754 ! Filopodium disjoint_from: NIF_Subcellular:sao-961694769 ! Excrescence property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Spine" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1145756102" xsd:string property_value: nif_obo_annot:modifiedDate "May 28, 2009" xsd:string [Term] id: NIF_Subcellular:sao1152983960 name: Intercalated Disk namespace: birnlex_anatomy def: "Contact site between adjacent cells in cardiac muscle fibers. When observing tissue through a microscope, this is an identifying feature of cardiac muscle.It holds the myofibrils together and permits easy transfer of excitation (depolarization)." [] xref: SAO:sao1152983960 is_a: NIF_Subcellular:sao1299635018 ! Cell Cell Contact Zone disjoint_from: NIF_Subcellular:sao1943947957 ! Peg And Socket Contact property_value: http://www.w3.org/2004/02/skos/core#definition "Contact site between adjacent cells in cardiac muscle fibers. When observing tissue through a microscope, this is an identifying feature of cardiac muscle.It holds the myofibrils together and permits easy transfer of excitation (depolarization)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Intercalated Disk" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1152983960" xsd:string [Term] id: NIF_Subcellular:sao1153182838 name: Vesicle Membrane namespace: birnlex_anatomy def: "The lipid bilayer surrounding any membrane-bounded vesicle in the cell (Gene Ontology)." [] xref: GO:0012506 xref: SAO:sao1153182838 xref: UMLS:C1167317 is_a: NIF_Subcellular:sao830981606 ! Intracellular Membrane disjoint_from: NIF_Subcellular:sao1045389829 ! Mitochondrial Membrane disjoint_from: NIF_Subcellular:sao978443756 ! Endosomal Membrane property_value: http://www.w3.org/2004/02/skos/core#definition "The lipid bilayer surrounding any membrane-bounded vesicle in the cell (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Vesicle Membrane" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0012506" xsd:string property_value: nif_annot:sao_ID "sao1153182838" xsd:string property_value: nif_annot:umls_ID "C1167317" xsd:string [Term] id: NIF_Subcellular:sao1164727693 name: Glutamate Receptor namespace: birnlex_anatomy def: "Cell-surface proteins that bind glutamate and trigger changes which influence the behavior of cells. Glutamate receptors include ionotropic receptors (AMPA, kainate, and N-methyl-D-aspartate receptors), which directly control ion channels, and metabotropic receptors which act through second messenger systems. Glutamate receptors are the most common mediators of fast excitatory synaptic transmission in the central nervous system. They have also been implicated in the mechanisms of memory and of many diseases (MSH)." [] xref: SAO:sao1164727693 xref: UMLS:C0061465 is_a: NIF_Molecule:sao26622963 property_value: http://www.w3.org/2004/02/skos/core#definition "Cell-surface proteins that bind glutamate and trigger changes which influence the behavior of cells. Glutamate receptors include ionotropic receptors (AMPA, kainate, and N-methyl-D-aspartate receptors), which directly control ion channels, and metabotropic receptors which act through second messenger systems. Glutamate receptors are the most common mediators of fast excitatory synaptic transmission in the central nervous system. They have also been implicated in the mechanisms of memory and of many diseases (MSH)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Glutamate Receptor" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:hasFormerParentClass "NIF_Subcellular:sao587592318" xsd:string property_value: nif_annot:sao_ID "sao1164727693" xsd:string property_value: nif_annot:umls_ID "C0061465" xsd:string property_value: nif_obo_annot:modifiedDate "May 1, 2009" xsd:string [Term] id: NIF_Subcellular:sao1177708494 name: Vesicle Coat namespace: birnlex_anatomy def: "Refers to any specialized coating present on a vesicle membrane, e.g., clathrin." [] xref: GO:0030120 xref: SAO:sao1177708494 xref: UMLS:C1166749 is_a: NIF_Subcellular:sao1455064842 ! Vesicle Subcomponent disjoint_from: NIF_Subcellular:sao1490223249 ! Vesicle Cargo property_value: http://www.w3.org/2004/02/skos/core#definition "Refers to any specialized coating present on a vesicle membrane, e.g., clathrin." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Vesicle Coat" xsd:string property_value: nif_annot:gene_Ontology_ID "0030120" xsd:string property_value: nif_annot:sao_ID "sao1177708494" xsd:string property_value: nif_annot:umls_ID "C1166749" xsd:string [Term] id: NIF_Subcellular:sao118541872 name: Gap Junction namespace: birnlex_anatomy def: "Any specialized areas of the plasma membranes of adjacent cells where the membranes are 2-4 nm apart and penetrated by a connexon (Gene Ontology)." [] xref: GO:0005921 xref: SAO:sao118541872 xref: UMLS:C0206117 is_a: NIF_Subcellular:sao1922892319 ! Intercellular Junction Site disjoint_from: NIF_Subcellular:sao-946766835 ! Synaptic Site disjoint_from: NIF_Subcellular:sao1400623473 ! Zonula Adhaerens disjoint_from: NIF_Subcellular:sao1939999134 ! Zonula Occludens disjoint_from: NIF_Subcellular:sao1956738165 ! Macular Adhaerentia disjoint_from: NIF_Subcellular:sao427941916 ! Septate Junction property_value: http://www.w3.org/2004/02/skos/core#definition "Any specialized areas of the plasma membranes of adjacent cells where the membranes are 2-4 nm apart and penetrated by a connexon (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/gap_junction_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Gap Junction" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005921" xsd:string property_value: nif_annot:sao_ID "sao118541872" xsd:string property_value: nif_annot:umls_ID "C0206117" xsd:string [Term] id: NIF_Subcellular:sao1186327184 name: Mitochondrial Chromosome namespace: birnlex_anatomy def: "A chromosome found in the mitochondrion of a eukaryotic cell (Gene Ontology)." [] xref: GO:0000262 xref: SAO:sao1186327184 xref: UMLS:C1166687 is_a: NIF_Subcellular:sao666410040 ! Mitochondrial Subcomponent disjoint_from: NIF_Subcellular:sao1933817066 ! Mitochondrial Adhaerens Complex property_value: http://www.w3.org/2004/02/skos/core#definition "A chromosome found in the mitochondrion of a eukaryotic cell (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Mitochondrial Chromosome" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0000262" xsd:string property_value: nif_annot:sao_ID "sao1186327184" xsd:string property_value: nif_annot:umls_ID "C1166687" xsd:string [Term] id: NIF_Subcellular:sao1186642361 name: Oligodendrocyte Compact Myelin namespace: birnlex_anatomy def: "The portion of the myelin sheath in which layers of cell membrane are tightly juxtaposed, completely excluding cytoplasm. The juxtaposed cytoplasmic surfaces form the major dense line, while the juxtaposed extracellular surfaces form the interperiod line visible in electron micrographs (Gene Ontology)." [] xref: GO:0043218 xref: SAO:sao1186642361 is_a: NIF_Subcellular:sao1279474730 ! Oligodendrocyte Myelin Sheath property_value: http://www.w3.org/2004/02/skos/core#definition "The portion of the myelin sheath in which layers of cell membrane are tightly juxtaposed, completely excluding cytoplasm. The juxtaposed cytoplasmic surfaces form the major dense line, while the juxtaposed extracellular surfaces form the interperiod line visible in electron micrographs (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Oligodendrocyte Compact Myelin" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0043218" xsd:string property_value: nif_annot:sao_ID "sao1186642361" xsd:string [Term] id: NIF_Subcellular:sao1186862860 name: Basal Pole Of Neuron namespace: birnlex_anatomy def: "Portion of a cell soma closest to the point where the basilar dendrite emerges." [] xref: SAO:sao1186862860 is_a: snap:Site disjoint_from: NIF_Subcellular:sao-1367457321 ! Mitochondrial Site disjoint_from: NIF_Subcellular:sao-596411490 ! Node Related Site disjoint_from: NIF_Subcellular:sao1049717962 ! Regional Part Of Neuronal Cell Body disjoint_from: NIF_Subcellular:sao1289190043 ! Cellular Space disjoint_from: NIF_Subcellular:sao1299635018 ! Cell Cell Contact Zone disjoint_from: NIF_Subcellular:sao1425028079 ! Extracellular Space disjoint_from: NIF_Subcellular:sao1579007712 ! Cell Interior disjoint_from: NIF_Subcellular:sao1877927224 ! Apical Pole Of Neuron disjoint_from: NIF_Subcellular:sao1922892319 ! Intercellular Junction Site disjoint_from: NIF_Subcellular:sao553711217 ! Spine Related Site property_value: http://www.w3.org/2004/02/skos/core#definition "Portion of a cell soma closest to the point where the basilar dendrite emerges." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Basal Pole Of Neuron" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1186862860" xsd:string [Term] id: NIF_Subcellular:sao1189060993 name: Vellous Process namespace: birnlex_anatomy def: "Refers to the fine, veil-like terminal processes of protoplasmic astrocytes." [] xref: SAO:sao1189060993 is_a: NIF_Subcellular:sao1630537580 ! Astrocyte Process disjoint_from: NIF_Subcellular:sao1573004591 ! Peripheral Astrocyte Process property_value: http://www.w3.org/2004/02/skos/core#definition "Refers to the fine, veil-like terminal processes of protoplasmic astrocytes." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Vellous Process" xsd:string property_value: nif_annot:curationStatus "graph position temporary" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1189060993" xsd:string [Term] id: NIF_Subcellular:sao118944228 name: Mitochondrial Intermembrane Space namespace: birnlex_anatomy def: "The region between the inner and outer lipid bilayers of the mitochondrial envelope. (Gene Ontology)." [] xref: GO:0005758 xref: SAO:sao118944228 xref: UMLS:C1166886 is_a: NIF_Subcellular:sao-343550527 ! Mitochondrial Space disjoint_from: NIF_Subcellular:sao-1899375636 ! Mitochondrial Lumen disjoint_from: NIF_Subcellular:sao508958414 ! Intracristal Space property_value: http://protege.stanford.edu/plugins/owl/protege#subclassesDisjoint "true" xsd:boolean property_value: http://www.w3.org/2004/02/skos/core#definition "The region between the inner and outer lipid bilayers of the mitochondrial envelope. (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Mitochondrial Intermembrane Space" xsd:string property_value: nif_annot:curationStatus "graph position temporary" xsd:string property_value: nif_annot:gene_Ontology_ID "0005758" xsd:string property_value: nif_annot:sao_ID "sao118944228" xsd:string property_value: nif_annot:umls_ID "C1166886" xsd:string [Term] id: NIF_Subcellular:sao1191319089 name: Juxta Paranode Axon namespace: birnlex_anatomy def: "Region of axon immediately adjacent to the paranode." [] xref: SAO:sao1191319089 is_a: NIF_Subcellular:sao340271629 ! Regional Part Of Cell relationship: http://www.obofoundry.org/ro/ro.owl#proper_part_of NIF_Subcellular:sao1770195789 ! Axon disjoint_from: NIF_Subcellular:sao-188049490 ! Node Of Ranvier Axon disjoint_from: NIF_Subcellular:sao830092290 ! Internode Axon disjoint_from: NIF_Subcellular:sao936144858 ! Paranode Axon property_value: http://www.w3.org/2004/02/skos/core#definition "Region of axon immediately adjacent to the paranode." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Juxta Paranode Axon" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:hasFormerParentClass "NIF_Subcellular:sao1791490892" xsd:string property_value: nif_annot:sao_ID "sao1191319089" xsd:string property_value: nif_obo_annot:modifiedDate "May 28, 2009" xsd:string [Term] id: NIF_Subcellular:sao1196688972 name: Post-synaptic Density namespace: birnlex_anatomy def: "Synaptic component; electron dense cytoskeletal specialization located on the post synaptic membrane at the site of synaptic contact. The PSD is particularly prominent in glutamatergic synapses, giving the synapse an asymmetrical appearance. This type of PSD is often referred to as \"asymmetrical\" or Gray's Type 1 (Maryann Martone, from the CCDB Dictionary)." [] xref: GO:0014069 xref: SAO:sao1196688972 is_a: NIF_Subcellular:sao1507566336 ! Post-synaptic Component property_value: http://www.w3.org/2004/02/skos/core#definition "Synaptic component; electron dense cytoskeletal specialization located on the post synaptic membrane at the site of synaptic contact. The PSD is particularly prominent in glutamatergic synapses, giving the synapse an asymmetrical appearance. This type of PSD is often referred to as \"asymmetrical\" or Gray's Type 1 (Maryann Martone, from the CCDB Dictionary)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/psd_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Post-synaptic Density" xsd:string property_value: nif_annot:bonfire_ID "BF_C000103" xsd:string property_value: nif_annot:gene_Ontology_ID "0014069" xsd:string property_value: nif_annot:sao_ID "sao1196688972" xsd:string [Term] id: NIF_Subcellular:sao11978067 name: Basal Body namespace: birnlex_anatomy def: "A short cylindrical array of microtubules and associated proteins found at the base of a eukaryotic cilium or flagellum that is similar in structure to a centriole. The basal body serves as a nucleation site for axoneme growth (Gene Ontology)." [] xref: GO:0005932 xref: SAO:sao11978067 xref: UMLS:C0230744 is_a: NIF_Subcellular:sao-1337158144 ! Cellular Component disjoint_from: NIF_Subcellular:sao101633890 ! Cytosol disjoint_from: NIF_Subcellular:sao1081228141 ! Glycogen Granule disjoint_from: NIF_Subcellular:sao120573470 ! Cellular Inclusion disjoint_from: NIF_Subcellular:sao1397492660 ! Basal Lamina disjoint_from: NIF_Subcellular:sao1539965131 ! Organelle disjoint_from: NIF_Subcellular:sao1635329413 ! Cytoskeletal Element disjoint_from: NIF_Subcellular:sao1663586795 ! Plasma Membrane disjoint_from: NIF_Subcellular:sao1784069613 ! Synaptic Component disjoint_from: NIF_Subcellular:sao1938587839 ! Subplasmalemmal Coating disjoint_from: NIF_Subcellular:sao1969557946 ! Coated Pit disjoint_from: NIF_Subcellular:sao221389602 ! Vesicle disjoint_from: NIF_Subcellular:sao628508602 ! Cellular Subcomponent disjoint_from: NIF_Subcellular:sao730872736 ! Dense Body disjoint_from: NIF_Subcellular:sao787716553 ! Cilium disjoint_from: NIF_Subcellular:sao830981606 ! Intracellular Membrane property_value: http://www.w3.org/2004/02/skos/core#definition "A short cylindrical array of microtubules and associated proteins found at the base of a eukaryotic cilium or flagellum that is similar in structure to a centriole. The basal body serves as a nucleation site for axoneme growth (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/basal_bodies_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Basal Body" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005932" xsd:string property_value: nif_annot:sao_ID "sao11978067" xsd:string property_value: nif_annot:umls_ID "C0230744" xsd:string [Term] id: NIF_Subcellular:sao120573470 name: Cellular Inclusion namespace: birnlex_anatomy def: "A nuclear or cytoplasmic aggregate of stainable substances, usually proteins." [] synonym: "Inclusion Body" EXACT [] xref: SAO:sao120573470 is_a: NIF_Subcellular:sao-1337158144 ! Cellular Component disjoint_from: NIF_Subcellular:sao101633890 ! Cytosol disjoint_from: NIF_Subcellular:sao1081228141 ! Glycogen Granule disjoint_from: NIF_Subcellular:sao11978067 ! Basal Body disjoint_from: NIF_Subcellular:sao1397492660 ! Basal Lamina disjoint_from: NIF_Subcellular:sao1539965131 ! Organelle disjoint_from: NIF_Subcellular:sao1635329413 ! Cytoskeletal Element disjoint_from: NIF_Subcellular:sao1663586795 ! Plasma Membrane disjoint_from: NIF_Subcellular:sao1784069613 ! Synaptic Component disjoint_from: NIF_Subcellular:sao1938587839 ! Subplasmalemmal Coating disjoint_from: NIF_Subcellular:sao1969557946 ! Coated Pit disjoint_from: NIF_Subcellular:sao221389602 ! Vesicle disjoint_from: NIF_Subcellular:sao628508602 ! Cellular Subcomponent disjoint_from: NIF_Subcellular:sao730872736 ! Dense Body disjoint_from: NIF_Subcellular:sao787716553 ! Cilium disjoint_from: NIF_Subcellular:sao830981606 ! Intracellular Membrane property_value: http://www.w3.org/2004/02/skos/core#definition "A nuclear or cytoplasmic aggregate of stainable substances, usually proteins." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Cellular Inclusion" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao120573470" xsd:string property_value: nif_obo_annot:synonym "Inclusion Body" xsd:string [Term] id: NIF_Subcellular:sao120818728 name: Lumenal Surface namespace: birnlex_anatomy xref: SAO:sao120818728 is_a: NIF_Subcellular:sao1329750433 ! Membrane Surface disjoint_from: NIF_Subcellular:sao1514682949 ! Cytoplasmic Surface disjoint_from: NIF_Subcellular:sao2135015805 ! Extracellular Surface property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Lumenal Surface" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao120818728" xsd:string [Term] id: NIF_Subcellular:sao1210952635 name: Nucleolus-associated Heterochromatin namespace: birnlex_anatomy def: "Dense particles of heterochromatin, consisting of a loosely twisted strang ~600 A thick, found associated with the nucleolus (Palay and Chan-Palay, 1974)." [] xref: SAO:sao1210952635 is_a: NIF_Subcellular:sao505137457 ! Nuclear Body property_value: http://www.w3.org/2004/02/skos/core#definition "Dense particles of heterochromatin, consisting of a loosely twisted strang ~600 A thick, found associated with the nucleolus (Palay and Chan-Palay, 1974)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Nucleolus-associated Heterochromatin" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1210952635" xsd:string [Term] id: NIF_Subcellular:sao1211023249 name: Dendrite namespace: birnlex_anatomy def: "A branching protoplasmic process of a neuron that receive and integrate signals coming from axons of other neurons, and convey the resulting signal to the body of the cell (Gene Ontology)." [] xref: GO:0030425 xref: SAO:sao1211023249 xref: UMLS:C0011305 is_a: NIF_Subcellular:sao-867568886 ! Neuron Process disjoint_from: NIF_Subcellular:sao1770195789 ! Axon property_value: http://www.w3.org/2004/02/skos/core#definition "A branching protoplasmic process of a neuron that receive and integrate signals coming from axons of other neurons, and convey the resulting signal to the body of the cell (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "One of several similar processes that issue from the perikaryon of a neuron, generally specialized for receiving synaptic input from other neurons or transduction of signals from the environment." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/dend_ccdb_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Dendrite" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0030425" xsd:string property_value: nif_annot:sao_ID "sao1211023249" xsd:string property_value: nif_annot:umls_ID "C0011305" xsd:string [Term] id: NIF_Subcellular:sao1217793903 name: Pars Granulosa namespace: birnlex_anatomy def: "Nucleolar compartment consisting of large numbers of small, extremely dense granules 150-300 A in diameter, suspended in a matting of fine filaments (Palay and Chan-Palay, 1974)." [] xref: SAO:sao1217793903 xref: UMLS:C0230580 is_a: NIF_Subcellular:sao113580911 ! Regional Part Of Nucleolus disjoint_from: NIF_Subcellular:sao1841764412 ! Pars Fibrosa property_value: http://www.w3.org/2004/02/skos/core#definition "Nucleolar compartment consisting of large numbers of small, extremely dense granules 150-300 A in diameter, suspended in a matting of fine filaments (Palay and Chan-Palay, 1974)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Pars Granulosa" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1217793903" xsd:string property_value: nif_annot:umls_ID "C0230580" xsd:string [Term] id: NIF_Subcellular:sao1232858786 name: Thin Dendritic Spine namespace: birnlex_anatomy xref: SAO:sao1232858786 is_a: NIF_Subcellular:sao1799103720 ! Dendritic Spine disjoint_from: NIF_Subcellular:sao-876577163 ! Mushroom Dendritic Spine disjoint_from: NIF_Subcellular:sao-965204139 ! Branched Dendritic Spine disjoint_from: NIF_Subcellular:sao1536532595 ! Sessile Dendritic Spine disjoint_from: NIF_Subcellular:sao317384566 ! Stubby Dendritic Spine property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/thin_dend_spine_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Thin Dendritic Spine" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1232858786" xsd:string [Term] id: NIF_Subcellular:sao1241866791 name: Large Vesicle namespace: birnlex_anatomy def: "Vesicles of same size and content of coated vesicles; posited by Clooney et al. (2002) to represent coated vesicles after uncoating." [] xref: SAO:sao1241866791 is_a: NIF_Subcellular:sao1362520468 ! Endocytic Vesicle disjoint_from: NIF_Subcellular:sao1243595998 ! Clathrin Coated Endocytic Vesicle disjoint_from: NIF_Subcellular:sao1925368674 ! Pinocytic Vesicle property_value: http://www.w3.org/2004/02/skos/core#definition "Vesicles of same size and content of coated vesicles; posited by Clooney et al. (2002) to represent coated vesicles after uncoating." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Large Vesicle" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1241866791" xsd:string [Term] id: NIF_Subcellular:sao1243595998 name: Clathrin Coated Endocytic Vesicle namespace: birnlex_anatomy def: "A clathrin-coated, membrane-bounded intracellular vesicle formed by invagination of the plasma membrane around an extracellular substance (Gene Ontology)." [] xref: GO:0045334 xref: SAO:sao1243595998 is_a: NIF_Subcellular:sao1362520468 ! Endocytic Vesicle disjoint_from: NIF_Subcellular:sao1241866791 ! Large Vesicle disjoint_from: NIF_Subcellular:sao1925368674 ! Pinocytic Vesicle property_value: http://www.w3.org/2004/02/skos/core#definition "A clathrin-coated, membrane-bounded intracellular vesicle formed by invagination of the plasma membrane around an extracellular substance (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/clath_coated_endocy_vesicle_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Clathrin Coated Endocytic Vesicle" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0045334" xsd:string property_value: nif_annot:sao_ID "sao1243595998" xsd:string [Term] id: NIF_Subcellular:sao124393998 name: Endoplasmic Reticulum Exit Site namespace: birnlex_anatomy def: "Specialized ribosome-free subdomains of synthetic endoplasmic reticulum where cargo is concentrated into vesicles tha bud from the endoplasmic reticulum for tranport to the Golgi (Horton and Ehlers, 2004)." [] xref: SAO:sao124393998 is_a: NIF_Subcellular:sao2019617624 ! Regional Part Of RER property_value: http://www.w3.org/2004/02/skos/core#definition "Specialized ribosome-free subdomains of synthetic endoplasmic reticulum where cargo is concentrated into vesicles tha bud from the endoplasmic reticulum for tranport to the Golgi (Horton and Ehlers, 2004)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Endoplasmic Reticulum Exit Site" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao124393998" xsd:string [Term] id: NIF_Subcellular:sao1253297813 name: Glial Subcompartment namespace: birnlex_anatomy xref: SAO:sao1253297813 is_a: NIF_Subcellular:sao895885284 ! Regional Part Of Glial Cell disjoint_from: NIF_Subcellular:sao195217619 ! Regional Part Of Schwann Cell disjoint_from: NIF_Subcellular:sao685712019 ! Regional Part Of Astrocyte disjoint_from: NIF_Subcellular:sao831502550 ! Regional Part Of Oligodendrocyte property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Glial Subcompartment" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1253297813" xsd:string [Term] id: NIF_Subcellular:sao1279474730 name: Oligodendrocyte Myelin Sheath namespace: birnlex_anatomy def: "An electrically insulating fatty layer that surrounds the axons of many neurons. It is an outgrowth of glial cells: Schwann cells supply the myelin for peripheral neurons while oligodendrocytes supply it to those of the central nervous system (Gene Ontology)." [] xref: GO:0043209 xref: SAO:sao1279474730 xref: UMLS:C0026973 is_a: NIF_Subcellular:sao831502550 ! Regional Part Of Oligodendrocyte property_value: http://www.w3.org/2004/02/skos/core#definition "An electrically insulating fatty layer that surrounds the axons of many neurons. It is an outgrowth of glial cells: Schwann cells supply the myelin for peripheral neurons while oligodendrocytes supply it to those of the central nervous system (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Oligodendrocyte Myelin Sheath" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0043209" xsd:string property_value: nif_annot:sao_ID "sao1279474730" xsd:string property_value: nif_annot:umls_ID "C0026973" xsd:string [Term] id: NIF_Subcellular:sao128470897 name: Sub-surface Cisternae namespace: birnlex_anatomy def: "Specialization of the hypolemmal cisterna consisting of either single profiles or closely apposed stacks of ER in which the lumen is obliterated, lying 10-20 nm beneath the plasma membrane (Peters, Palay and Webster, 1991)." [] xref: SAO:sao128470897 is_a: NIF_Subcellular:sao1634374950 ! Hypolemmal Cisternae property_value: http://www.w3.org/2004/02/skos/core#definition "Specialization of the hypolemmal cisterna consisting of either single profiles or closely apposed stacks of ER in which the lumen is obliterated, lying 10-20 nm beneath the plasma membrane (Peters, Palay and Webster, 1991)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/cisternae_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Sub-surface Cisternae" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao128470897" xsd:string [Term] id: NIF_Subcellular:sao1289190043 name: Cellular Space namespace: birnlex_anatomy def: "Anatomical space occurring within a cell, usually formed by intracellular membranes." [] xref: SAO:sao1289190043 is_a: snap:Site disjoint_from: NIF_Subcellular:sao-1367457321 ! Mitochondrial Site disjoint_from: NIF_Subcellular:sao-596411490 ! Node Related Site disjoint_from: NIF_Subcellular:sao1049717962 ! Regional Part Of Neuronal Cell Body disjoint_from: NIF_Subcellular:sao1186862860 ! Basal Pole Of Neuron disjoint_from: NIF_Subcellular:sao1299635018 ! Cell Cell Contact Zone disjoint_from: NIF_Subcellular:sao1425028079 ! Extracellular Space disjoint_from: NIF_Subcellular:sao1579007712 ! Cell Interior disjoint_from: NIF_Subcellular:sao1877927224 ! Apical Pole Of Neuron disjoint_from: NIF_Subcellular:sao1922892319 ! Intercellular Junction Site disjoint_from: NIF_Subcellular:sao553711217 ! Spine Related Site property_value: http://www.w3.org/2004/02/skos/core#definition "Anatomical space occurring within a cell, usually formed by intracellular membranes." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Cellular Space" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1289190043" xsd:string [Term] id: NIF_Subcellular:sao1289741256 name: Mitochondrial Membrane Outer namespace: birnlex_anatomy def: "The membrane on the outer surface of the mitochondrion, interfacing with the cell cytoplasm (Gene Ontology)." [] xref: GO:0005741 xref: SAO:sao1289741256 xref: UMLS:C0230839 is_a: NIF_Subcellular:sao1045389829 ! Mitochondrial Membrane disjoint_from: NIF_Subcellular:sao1371347282 ! Mitochondrial Membrane Inner property_value: http://www.w3.org/2004/02/skos/core#definition "The membrane on the outer surface of the mitochondrion, interfacing with the cell cytoplasm (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/mito_outer_memb_ccdb_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Mitochondrial Membrane Outer" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005741" xsd:string property_value: nif_annot:sao_ID "sao1289741256" xsd:string property_value: nif_annot:umls_ID "C0230839" xsd:string [Term] id: NIF_Subcellular:sao1291545653 name: Membrane Bound Ribosome namespace: birnlex_anatomy def: "A ribosome that is attached to a intracellular membrane. Does not itself have a membrane surrounding it." [] xref: SAO:sao1291545653 is_a: NIF_Subcellular:sao1429207766 ! Ribosome disjoint_from: NIF_Subcellular:sao1139385046 ! Free Ribosome property_value: http://www.w3.org/2004/02/skos/core#definition "A ribosome that is attached to a intracellular membrane. Does not itself have a membrane surrounding it." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Membrane Bound Ribosome" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1291545653" xsd:string [Term] id: NIF_Subcellular:sao1299635018 name: Cell Cell Contact Zone namespace: birnlex_anatomy def: "Extended zone of intimate apposition between two cells containing one or more types of intercellular junctions, e.g., the intercalated disk of muscle" [] xref: SAO:sao1299635018 is_a: snap:Site disjoint_from: NIF_Subcellular:sao-1367457321 ! Mitochondrial Site disjoint_from: NIF_Subcellular:sao-596411490 ! Node Related Site disjoint_from: NIF_Subcellular:sao1049717962 ! Regional Part Of Neuronal Cell Body disjoint_from: NIF_Subcellular:sao1186862860 ! Basal Pole Of Neuron disjoint_from: NIF_Subcellular:sao1289190043 ! Cellular Space disjoint_from: NIF_Subcellular:sao1425028079 ! Extracellular Space disjoint_from: NIF_Subcellular:sao1579007712 ! Cell Interior disjoint_from: NIF_Subcellular:sao1877927224 ! Apical Pole Of Neuron disjoint_from: NIF_Subcellular:sao1922892319 ! Intercellular Junction Site disjoint_from: NIF_Subcellular:sao553711217 ! Spine Related Site property_value: dc:contributor "Maryann Martone" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Extended zone of intimate apposition between two cells containing one or more types of intercellular junctions, e.g., the intercalated disk of muscle" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Cell Cell Contact Zone" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1299635018" xsd:string [Term] id: NIF_Subcellular:sao1311109124 name: Electrotonic Synapse namespace: birnlex_anatomy def: "Electrotonic synapses are gap junctions that allow the passage of ions directly from cell to cell. Ultrastructurally, it can be recognized as a 7 layered structure with 4 dense lines, two from each of the plasma membranes, alternating with 3 lighter lines. Electrotonic synapses are generally symmetric and display little or no dense material associated with the cytoplasmic face of the plasma membrane (Peters, Palay and Webster, 1991)." [] synonym: "Electrical Synapse" EXACT [] xref: SAO:sao1311109124 is_a: NIF_Subcellular:sao914572699 ! Synapse disjoint_from: NIF_Subcellular:sao1506103497 ! Mixed Synapse disjoint_from: NIF_Subcellular:sao289211478 ! Chemical Synapse property_value: http://www.w3.org/2004/02/skos/core#definition "Electrotonic synapses are gap junctions that allow the passage of ions directly from cell to cell. Ultrastructurally, it can be recognized as a 7 layered structure with 4 dense lines, two from each of the plasma membranes, alternating with 3 lighter lines. Electrotonic synapses are generally symmetric and display little or no dense material associated with the cytoplasmic face of the plasma membrane (Peters, Palay and Webster, 1991)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/electrotonic_syn_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/sym_synapse_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Electrotonic Synapse" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1311109124" xsd:string property_value: nif_obo_annot:synonym "Electrical Synapse" xsd:string [Term] id: NIF_Subcellular:sao1316272517 name: Neurofilament namespace: birnlex_anatomy def: "A type of intermediate filament found in the core of neuronal axons. Neurofilaments are heteropolymers composed of three type IV polypeptides: NF-L, NF-M, and NF-H (for low, middle, and high molecular weight). Neurofilaments are responsible for the radial growth of an axon and determine axonal diameter (Gene Ontology)." [] xref: GO:0005883 xref: SAO:sao1316272517 xref: UMLS:C0027834 is_a: NIF_Subcellular:sao952483289 ! Intermediate Filament disjoint_from: NIF_Subcellular:sao-1863852493 ! Glial Filament property_value: http://www.w3.org/2004/02/skos/core#definition "A type of intermediate filament found in the core of neuronal axons. Neurofilaments are heteropolymers composed of three type IV polypeptides: NF-L, NF-M, and NF-H (for low, middle, and high molecular weight). Neurofilaments are responsible for the radial growth of an axon and determine axonal diameter (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/neurofilament_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Neurofilament" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005883" xsd:string property_value: nif_annot:sao_ID "sao1316272517" xsd:string property_value: nif_annot:umls_ID "C0027834" xsd:string [Term] id: NIF_Subcellular:sao1329750433 name: Membrane Surface namespace: birnlex_anatomy xref: SAO:sao1329750433 is_a: snap:ObjectBoundary property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Membrane Surface" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1329750433" xsd:string [Term] id: NIF_Subcellular:sao1340260079 name: Tuft namespace: birnlex_anatomy def: "Refers to the terminal specialization found in some types of dendrites consisting of numerous small terminal branches, giving the dendrite a tufted appearance." [] xref: SAO:sao1340260079 is_a: NIF_Subcellular:sao28175134 ! Terminal Specialization disjoint_from: NIF_Subcellular:sao1594955670 ! Dendritic Growth Cone disjoint_from: NIF_Subcellular:sao295057932 ! Dendriole property_value: http://www.w3.org/2004/02/skos/core#definition "Refers to the terminal specialization found in some types of dendrites consisting of numerous small terminal branches, giving the dendrite a tufted appearance." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Tuft" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1340260079" xsd:string [Term] id: NIF_Subcellular:sao1342297498 name: Amyloid Fibril namespace: birnlex_anatomy def: "A fibril composed of amyloid protein." [] xref: SAO:sao1342297498 is_a: NIF_Subcellular:sao5051906853 ! Fibril property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "A fibril composed of amyloid protein." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/amyloid_filament_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Amyloid Fibril" xsd:string property_value: nif_annot:sao_ID "sao1342297498" xsd:string [Term] id: NIF_Subcellular:sao1354781919 name: Oligodendrocyte Paranodal Termination namespace: birnlex_anatomy def: "Cytoplasmic pockets, or as they appear in thin sections \"loops\" formed by the Schwann cell in the paranodal region. These pockets are actually part of a continuous helical structure providing cytoplasmic continuity from the inntermost to the outermost layers of the myelin sheath through the cytoplasmic channel formed by the loop. Most are directly apposed to the paranodal axonal membrane" [] synonym: "Paranodal loop" EXACT [] xref: SAO:sao1354781919 is_a: NIF_Subcellular:sao1279474730 ! Oligodendrocyte Myelin Sheath property_value: http://www.w3.org/2004/02/skos/core#definition "Cytoplasmic pockets, or as they appear in thin sections \"loops\" formed by the Schwann cell in the paranodal region. These pockets are actually part of a continuous helical structure providing cytoplasmic continuity from the inntermost to the outermost layers of the myelin sheath through the cytoplasmic channel formed by the loop. Most are directly apposed to the paranodal axonal membrane" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Oligodendrocyte Paranodal Termination" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1354781919" xsd:string property_value: nif_obo_annot:synonym "Paranodal loop" xsd:string [Term] id: NIF_Subcellular:sao1362520468 name: Endocytic Vesicle namespace: birnlex_anatomy def: "A membrane-bounded intracellular vesicle formed by invagination of the plasma membrane around an extracellular substance (Gene Ontology)." [] xref: GO:0030139 xref: SAO:sao1362520468 xref: UMLS:C0887883 is_a: NIF_Subcellular:sao180601769 ! Cytoplasmic Vesicle disjoint_from: NIF_Subcellular:sao1071221672 ! Synaptic Vesicle disjoint_from: NIF_Subcellular:sao478230652 ! Granular Vesicle disjoint_from: NIF_Subcellular:sao577473346 ! Vesicle Other disjoint_from: NIF_Subcellular:sao885490876 ! Transport Vesicle property_value: http://www.w3.org/2004/02/skos/core#definition "A membrane-bounded intracellular vesicle formed by invagination of the plasma membrane around an extracellular substance (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Endocytic Vesicle" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0030139" xsd:string property_value: nif_annot:sao_ID "sao1362520468" xsd:string property_value: nif_annot:umls_ID "C0887883" xsd:string [Term] id: NIF_Subcellular:sao1371347282 name: Mitochondrial Membrane Inner namespace: birnlex_anatomy def: "The inner membrane of the mitochondria. It is highly folded to form cristae (Gene Ontology). The inner membrane of the mitochondria. It is highly folded to form cristae (Gene Ontology)." [] xref: GO:0005743 xref: SAO:sao1371347282 xref: UMLS:C0230840 is_a: NIF_Subcellular:sao1045389829 ! Mitochondrial Membrane disjoint_from: NIF_Subcellular:sao1289741256 ! Mitochondrial Membrane Outer property_value: http://www.w3.org/2004/02/skos/core#definition "The inner membrane of the mitochondria. It is highly folded to form cristae (Gene Ontology). The inner membrane of the mitochondria. It is highly folded to form cristae (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/mito_inner_memb_ccdb_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Mitochondrial Membrane Inner" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005743" xsd:string property_value: nif_annot:sao_ID "sao1371347282" xsd:string property_value: nif_annot:umls_ID "C0230840" xsd:string [Term] id: NIF_Subcellular:sao1376748732 name: Ensheathing Process namespace: birnlex_anatomy def: "Refers to the process of the Schwann cell that surrounds an unmyelinated axon or cell soma." [] xref: SAO:sao1376748732 is_a: NIF_Subcellular:sao195217619 ! Regional Part Of Schwann Cell property_value: http://www.w3.org/2004/02/skos/core#definition "Refers to the process of the Schwann cell that surrounds an unmyelinated axon or cell soma." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/ensheath_process_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Ensheathing Process" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1376748732" xsd:string [Term] id: NIF_Subcellular:sao1379604862 name: Lamellar Body namespace: birnlex_anatomy def: "Membranous inclusions composed of stacks of unperforated cisternae derived from the granular endoplasmic reticulum. Cisternae are spaced at intervals of about 30-40 nm (Peters, Palay and Webster, 1991)." [] xref: GO:0042599 xref: SAO:sao1379604862 is_a: NIF_Subcellular:sao120573470 ! Cellular Inclusion property_value: http://www.w3.org/2004/02/skos/core#definition "Membranous inclusions composed of stacks of unperforated cisternae derived from the granular endoplasmic reticulum. Cisternae are spaced at intervals of about 30-40 nm (Peters, Palay and Webster, 1991)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Lamellar Body" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0042599" xsd:string property_value: nif_annot:sao_ID "sao1379604862" xsd:string [Term] id: NIF_Subcellular:sao138219748 name: Vesicular Component namespace: birnlex_anatomy xref: SAO:sao138219748 is_a: NIF_Subcellular:sao1546288504 ! Regional Part Of Golgi disjoint_from: NIF_Subcellular:sao1039242387 ! Trans Face disjoint_from: NIF_Subcellular:sao632188024 ! Cis Face disjoint_from: NIF_Subcellular:sao9456487 ! Trans Golgi Network property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Vesicular Component" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao138219748" xsd:string [Term] id: NIF_Subcellular:sao1382918459 name: Inter-Golgi Transport Vesicle namespace: birnlex_anatomy def: "A vesicle that mediates transport of cargo within the Golgi complex (for example, between cisternae of the Golgi stack) (Gene Ontology)." [] xref: GO:0030143 xref: SAO:sao1382918459 is_a: NIF_Subcellular:sao885490876 ! Transport Vesicle property_value: http://www.w3.org/2004/02/skos/core#definition "A vesicle that mediates transport of cargo within the Golgi complex (for example, between cisternae of the Golgi stack) (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Inter-Golgi Transport Vesicle" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0030143" xsd:string property_value: nif_annot:sao_ID "sao1382918459" xsd:string [Term] id: NIF_Subcellular:sao138430598 name: Nematosome namespace: birnlex_anatomy def: "Cellular inclusions found in cytoplasm that resemble nuclioli and stain with basophilic stains. They are ball-like structures about .9 microns in diameter and lack a limiting membrane. Structurally, they are composed of tightly packed fine filaments attached to them by means of fine filaments that radiate from their periphery. They were first discribed by Grillo in 1970. (from Peters, Palay, Webster)" [] xref: SAO:sao138430598 is_a: NIF_Subcellular:sao120573470 ! Cellular Inclusion property_value: http://www.w3.org/2004/02/skos/core#definition "Cellular inclusions found in cytoplasm that resemble nuclioli and stain with basophilic stains. They are ball-like structures about .9 microns in diameter and lack a limiting membrane. Structurally, they are composed of tightly packed fine filaments attached to them by means of fine filaments that radiate from their periphery. They were first discribed by Grillo in 1970. (from Peters, Palay, Webster)" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Nematosome" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao138430598" xsd:string [Term] id: NIF_Subcellular:sao1395777368 name: Intercellular Junction namespace: birnlex_anatomy xref: SAO:sao1395777368 is_a: NIF_Subcellular:sao508165343 ! Supra Cellular Structure disjoint_from: NIF_Subcellular:sao205380252 ! Neuropil disjoint_from: NIF_Subcellular:sao732341560 ! Pinceau property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Intercellular Junction" xsd:string property_value: nif_annot:sao_ID "sao1395777368" xsd:string [Term] id: NIF_Subcellular:sao1397492660 name: Basal Lamina namespace: birnlex_anatomy def: "A thin sheet of proteoglycans and glycoproteins, especially laminin, secreted by cells as an extracellular matrix (Gene Ontology)." [] xref: GO:0005605 xref: SAO:sao1397492660 xref: UMLS:C0242195 is_a: NIF_Subcellular:sao9117790637 ! Extracellular Structure disjoint_from: NIF_Subcellular:sao101633890 ! Cytosol disjoint_from: NIF_Subcellular:sao1081228141 ! Glycogen Granule disjoint_from: NIF_Subcellular:sao11978067 ! Basal Body disjoint_from: NIF_Subcellular:sao120573470 ! Cellular Inclusion disjoint_from: NIF_Subcellular:sao1539965131 ! Organelle disjoint_from: NIF_Subcellular:sao1635329413 ! Cytoskeletal Element disjoint_from: NIF_Subcellular:sao1663586795 ! Plasma Membrane disjoint_from: NIF_Subcellular:sao1784069613 ! Synaptic Component disjoint_from: NIF_Subcellular:sao1938587839 ! Subplasmalemmal Coating disjoint_from: NIF_Subcellular:sao1969557946 ! Coated Pit disjoint_from: NIF_Subcellular:sao221389602 ! Vesicle disjoint_from: NIF_Subcellular:sao628508602 ! Cellular Subcomponent disjoint_from: NIF_Subcellular:sao730872736 ! Dense Body disjoint_from: NIF_Subcellular:sao787716553 ! Cilium disjoint_from: NIF_Subcellular:sao830981606 ! Intracellular Membrane property_value: http://www.w3.org/2004/02/skos/core#definition "A thin sheet of proteoglycans and glycoproteins, especially laminin, secreted by cells as an extracellular matrix (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Basal Lamina" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005605" xsd:string property_value: nif_annot:sao_ID "sao1397492660" xsd:string property_value: nif_annot:umls_ID "C0242195" xsd:string [Term] id: NIF_Subcellular:sao1400623473 name: Zonula Adhaerens namespace: birnlex_anatomy def: "Adherent, symmetrical junction characterized by widened extracellular space and filamentous material (Peters, Palay and Webster, 1991)." [] synonym: "fascia adhaerens" EXACT [] xref: SAO:sao1400623473 is_a: NIF_Subcellular:sao1922892319 ! Intercellular Junction Site disjoint_from: NIF_Subcellular:sao-946766835 ! Synaptic Site disjoint_from: NIF_Subcellular:sao118541872 ! Gap Junction disjoint_from: NIF_Subcellular:sao1939999134 ! Zonula Occludens disjoint_from: NIF_Subcellular:sao1956738165 ! Macular Adhaerentia disjoint_from: NIF_Subcellular:sao427941916 ! Septate Junction property_value: http://www.w3.org/2004/02/skos/core#definition "Adherent, symmetrical junction characterized by widened extracellular space and filamentous material (Peters, Palay and Webster, 1991)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/zonula_adherens_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Zonula Adhaerens" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1400623473" xsd:string property_value: nif_obo_annot:synonym "fascia adhaerens" xsd:string [Term] id: NIF_Subcellular:sao1425028079 name: Extracellular Space namespace: birnlex_anatomy def: "That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid (Gene Ontology)." [] xref: GO:0005616 xref: SAO:sao1425028079 is_a: snap:Site disjoint_from: NIF_Subcellular:sao-1367457321 ! Mitochondrial Site disjoint_from: NIF_Subcellular:sao-596411490 ! Node Related Site disjoint_from: NIF_Subcellular:sao1049717962 ! Regional Part Of Neuronal Cell Body disjoint_from: NIF_Subcellular:sao1186862860 ! Basal Pole Of Neuron disjoint_from: NIF_Subcellular:sao1289190043 ! Cellular Space disjoint_from: NIF_Subcellular:sao1299635018 ! Cell Cell Contact Zone disjoint_from: NIF_Subcellular:sao1579007712 ! Cell Interior disjoint_from: NIF_Subcellular:sao1877927224 ! Apical Pole Of Neuron disjoint_from: NIF_Subcellular:sao1922892319 ! Intercellular Junction Site disjoint_from: NIF_Subcellular:sao553711217 ! Spine Related Site property_value: http://www.w3.org/2004/02/skos/core#definition "That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/extracell_space_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Extracellular Space" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005616" xsd:string property_value: nif_annot:sao_ID "sao1425028079" xsd:string [Term] id: NIF_Subcellular:sao1429207766 name: Ribosome namespace: birnlex_anatomy def: "An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins (Gene Ontology)." [] xref: GO:0005840 xref: SAO:sao1429207766 xref: UMLS:C0035553 is_a: NIF_Subcellular:sao1456184038 ! Non Membrane Bound Organelle disjoint_from: NIF_Subcellular:sao1820400233 ! Nucleolus disjoint_from: NIF_Subcellular:sao95019936 ! Centriole property_value: http://www.w3.org/2004/02/skos/core#definition "An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/ribosomes_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Ribosome" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005840" xsd:string property_value: nif_annot:sao_ID "sao1429207766" xsd:string property_value: nif_annot:umls_ID "C0035553" xsd:string [Term] id: NIF_Subcellular:sao1447478620 name: Pial Endfoot namespace: birnlex_anatomy xref: SAO:sao1447478620 is_a: NIF_Subcellular:sao877341397 ! Regional Part Of Tanycyte disjoint_from: NIF_Subcellular:sao1749953771 ! Tail Portion disjoint_from: NIF_Subcellular:sao2064469343 ! Vascular Endfoot disjoint_from: NIF_Subcellular:sao401910342 ! Somatic Portion disjoint_from: NIF_Subcellular:sao901230115 ! Neck Portion property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Pial Endfoot" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1447478620" xsd:string [Term] id: NIF_Subcellular:sao1455064842 name: Vesicle Subcomponent namespace: birnlex_anatomy xref: SAO:sao1455064842 is_a: NIF_Subcellular:sao628508602 ! Cellular Subcomponent property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Vesicle Subcomponent" xsd:string property_value: nif_annot:sao_ID "sao1455064842" xsd:string [Term] id: NIF_Subcellular:sao1455996588 name: Nuclear Lamina namespace: birnlex_anatomy def: "Meshwork of extremely fine filaments composed of polypeptides called lamins that run parallel with the inner surface of the nuclear envelope (Peters, Palay and Webster, 1991)." [] xref: GO:0005652 xref: SAO:sao1455996588 xref: UMLS:C1136039 is_a: NIF_Subcellular:sao1499850686 ! Nuclear Subcomponent disjoint_from: NIF_Subcellular:sao1049471211 ! Interchromatin Granule disjoint_from: NIF_Subcellular:sao1571698684 ! Barr Body disjoint_from: NIF_Subcellular:sao1615953555 ! Chromatin disjoint_from: NIF_Subcellular:sao1687101204 ! Nuclear Membrane disjoint_from: NIF_Subcellular:sao1820400233 ! Nucleolus disjoint_from: NIF_Subcellular:sao220861693 ! Nuclear Pore disjoint_from: NIF_Subcellular:sao505137457 ! Nuclear Body disjoint_from: NIF_Subcellular:sao661522542 ! Nucleoplasm property_value: http://www.w3.org/2004/02/skos/core#definition "Meshwork of extremely fine filaments composed of polypeptides called lamins that run parallel with the inner surface of the nuclear envelope (Peters, Palay and Webster, 1991)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "The fibrous, electron-dense layer lying on the nucleoplasmic side of the inner membrane of a cell nucleus, composed of lamin filaments. The polypeptides of the lamina are thought to be concerned in the dissolution of the nuclear envelope and its re-formation during mitosis. The lamina is composed of lamin A and lamin C filaments cross-linked into an orthogonal lattice, which is attached via lamin B to the inner nuclear membrane through interactions with a lamin B receptor, an IFAP, in the membrane (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Nuclear Lamina" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005652" xsd:string property_value: nif_annot:sao_ID "sao1455996588" xsd:string property_value: nif_annot:umls_ID "C1136039" xsd:string [Term] id: NIF_Subcellular:sao1456184038 name: Non Membrane Bound Organelle namespace: birnlex_anatomy def: "Organized structure of distinctive morphology and function, not bounded by a lipid bilayer membrane. Includes ribosomes, the cytoskeleton and chromosomes (Gene Ontology)." [] xref: GO:0043228 xref: SAO:sao1456184038 is_a: NIF_Subcellular:sao1539965131 ! Organelle disjoint_from: NIF_Subcellular:sao414196390 ! Membrane Bound Organelle property_value: http://www.w3.org/2004/02/skos/core#definition "Organized structure of distinctive morphology and function, not bounded by a lipid bilayer membrane. Includes ribosomes, the cytoskeleton and chromosomes (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Non Membrane Bound Organelle" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0043228" xsd:string property_value: nif_annot:sao_ID "sao1456184038" xsd:string [Term] id: NIF_Subcellular:sao1470121605 name: Active Zone Cytomatrix namespace: birnlex_anatomy def: "Filamentous matrix immediately internal to the plasma membrane docking zone (Zhai and Bellen, 2004)." [] xref: SAO:sao1470121605 is_a: NIF_Subcellular:sao1911631652 ! Pre-synaptic Active Zone Component disjoint_from: NIF_Subcellular:sao1730664005 ! Pre-synaptic Grid disjoint_from: NIF_Subcellular:sao2038461087 ! Active Zone Plasma Membrane disjoint_from: NIF_Subcellular:sao494258938 ! Active Zone Dense Projection property_value: http://www.w3.org/2004/02/skos/core#definition "Filamentous matrix immediately internal to the plasma membrane docking zone (Zhai and Bellen, 2004)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Active Zone Cytomatrix" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1470121605" xsd:string [Term] id: NIF_Subcellular:sao1470140754 name: Axon Collateral namespace: birnlex_anatomy def: "Smaller branches of an axon that emanate from the main axon cylinder." [] xref: SAO:sao1470140754 is_a: NIF_Subcellular:sao280355188 ! Regional Part Of Axon disjoint_from: NIF_Subcellular:sao1586851177 ! Regional Part Of Basket cell axon disjoint_from: NIF_Subcellular:sao1596975044 ! Main Axon disjoint_from: NIF_Subcellular:sao2007137787 ! Axon Terminal disjoint_from: NIF_Subcellular:sao203987954 ! Axonal Growth Cone disjoint_from: NIF_Subcellular:sao256000789 ! Initial Segment disjoint_from: NIF_Subcellular:sao627227260 ! Axon Hillock property_value: http://www.w3.org/2004/02/skos/core#definition "Smaller branches of an axon that emanate from the main axon cylinder." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Axon Collateral" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1470140754" xsd:string [Term] id: NIF_Subcellular:sao1490223249 name: Vesicle Cargo namespace: birnlex_anatomy def: "Refers to the contents contained in the vesicle." [] xref: SAO:sao1490223249 is_a: NIF_Subcellular:sao1455064842 ! Vesicle Subcomponent disjoint_from: NIF_Subcellular:sao1177708494 ! Vesicle Coat property_value: http://www.w3.org/2004/02/skos/core#definition "Refers to the contents contained in the vesicle." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Vesicle Cargo" xsd:string property_value: nif_annot:sao_ID "sao1490223249" xsd:string [Term] id: NIF_Subcellular:sao1499850686 name: Nuclear Subcomponent namespace: birnlex_anatomy xref: SAO:sao1499850686 is_a: NIF_Subcellular:sao628508602 ! Cellular Subcomponent property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Nuclear Subcomponent" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1499850686" xsd:string [Term] id: NIF_Subcellular:sao1506103497 name: Mixed Synapse namespace: birnlex_anatomy def: "Synaptic contact characterized by both electrical and chemical synaptic junctions." [] xref: SAO:sao1506103497 is_a: NIF_Subcellular:sao914572699 ! Synapse disjoint_from: NIF_Subcellular:sao1311109124 ! Electrotonic Synapse disjoint_from: NIF_Subcellular:sao289211478 ! Chemical Synapse property_value: http://www.w3.org/2004/02/skos/core#definition "Existence of both chemical and electrotonic synapses at the same interface (Peters, Palay and Webster, 1991)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Synaptic contact characterized by both electrical and chemical synaptic junctions." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Mixed Synapse" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1506103497" xsd:string [Term] id: NIF_Subcellular:sao1507566336 name: Post-synaptic Component namespace: birnlex_anatomy xref: SAO:sao1507566336 is_a: NIF_Subcellular:sao1784069613 ! Synaptic Component disjoint_from: NIF_Subcellular:sao386529203 ! Pre-synaptic Component property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Post-synaptic Component" xsd:string property_value: nif_annot:sao_ID "sao1507566336" xsd:string [Term] id: NIF_Subcellular:sao1514682949 name: Cytoplasmic Surface namespace: birnlex_anatomy xref: SAO:sao1514682949 is_a: NIF_Subcellular:sao1329750433 ! Membrane Surface disjoint_from: NIF_Subcellular:sao120818728 ! Lumenal Surface disjoint_from: NIF_Subcellular:sao2135015805 ! Extracellular Surface property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Cytoplasmic Surface" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1514682949" xsd:string [Term] id: NIF_Subcellular:sao1524397168 name: Junctional Site namespace: birnlex_anatomy xref: SAO:sao1524397168 is_a: NIF_Subcellular:sao-946766835 ! Synaptic Site property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Junctional Site" xsd:string property_value: nif_annot:sao_ID "sao1524397168" xsd:string [Term] id: NIF_Subcellular:sao1531915298 name: Amorphous Vesicle namespace: birnlex_anatomy def: "Category of non-SER vesicle described by Clooney et al. (2002) in dendrites, categorized by smooth membranes, electron-lucent interiors and irregular shapes. Sometimes occurrs in clumps. These vesicles contained gold taken up from the extracellular space, suggesting that they may be part of the endosomal pathway." [] xref: SAO:sao1531915298 is_a: NIF_Subcellular:sao577473346 ! Vesicle Other disjoint_from: NIF_Subcellular:sao403156667 ! Docked Vesicle property_value: http://www.w3.org/2004/02/skos/core#definition "Category of non-SER vesicle described by Clooney et al. (2002) in dendrites, categorized by smooth membranes, electron-lucent interiors and irregular shapes. Sometimes occurrs in clumps. These vesicles contained gold taken up from the extracellular space, suggesting that they may be part of the endosomal pathway." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Amorphous Vesicle" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1531915298" xsd:string [Term] id: NIF_Subcellular:sao1536532595 name: Sessile Dendritic Spine namespace: birnlex_anatomy xref: SAO:sao1536532595 is_a: NIF_Subcellular:sao1799103720 ! Dendritic Spine disjoint_from: NIF_Subcellular:sao-876577163 ! Mushroom Dendritic Spine disjoint_from: NIF_Subcellular:sao-965204139 ! Branched Dendritic Spine disjoint_from: NIF_Subcellular:sao1232858786 ! Thin Dendritic Spine disjoint_from: NIF_Subcellular:sao317384566 ! Stubby Dendritic Spine property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Sessile Dendritic Spine" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1536532595" xsd:string [Term] id: NIF_Subcellular:sao1539965131 name: Organelle namespace: birnlex_anatomy def: "Organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane (Gene Ontology)." [] xref: GO:0043226 xref: SAO:sao1539965131 xref: UMLS:C0029219 is_a: NIF_Subcellular:sao-1337158144 ! Cellular Component disjoint_from: NIF_Subcellular:sao101633890 ! Cytosol disjoint_from: NIF_Subcellular:sao1081228141 ! Glycogen Granule disjoint_from: NIF_Subcellular:sao11978067 ! Basal Body disjoint_from: NIF_Subcellular:sao120573470 ! Cellular Inclusion disjoint_from: NIF_Subcellular:sao1397492660 ! Basal Lamina disjoint_from: NIF_Subcellular:sao1635329413 ! Cytoskeletal Element disjoint_from: NIF_Subcellular:sao1663586795 ! Plasma Membrane disjoint_from: NIF_Subcellular:sao1784069613 ! Synaptic Component disjoint_from: NIF_Subcellular:sao1938587839 ! Subplasmalemmal Coating disjoint_from: NIF_Subcellular:sao1969557946 ! Coated Pit disjoint_from: NIF_Subcellular:sao221389602 ! Vesicle disjoint_from: NIF_Subcellular:sao628508602 ! Cellular Subcomponent disjoint_from: NIF_Subcellular:sao730872736 ! Dense Body disjoint_from: NIF_Subcellular:sao787716553 ! Cilium disjoint_from: NIF_Subcellular:sao830981606 ! Intracellular Membrane property_value: http://www.w3.org/2004/02/skos/core#definition "Organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Organelle" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0043226" xsd:string property_value: nif_annot:sao_ID "sao1539965131" xsd:string property_value: nif_annot:umls_ID "C0029219" xsd:string [Term] id: NIF_Subcellular:sao1546288504 name: Regional Part Of Golgi namespace: birnlex_anatomy xref: SAO:sao1546288504 is_a: NIF_Subcellular:sao-1819020575 ! Regional Part Of Cell Component disjoint_from: NIF_Subcellular:sao-1686050947 ! Regional Part Of Mitochondrial Membrane disjoint_from: NIF_Subcellular:sao113580911 ! Regional Part Of Nucleolus disjoint_from: NIF_Subcellular:sao1682692988 ! Regional Part Of Spine Apparatus disjoint_from: NIF_Subcellular:sao2019617624 ! Regional Part Of RER property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of Golgi" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1546288504" xsd:string [Term] id: NIF_Subcellular:sao1547508851 name: Endosomal Lumen namespace: birnlex_anatomy def: "The volume enclosed by the membranes of an endosome (Gene Ontology)." [] synonym: "endosome lumen" EXACT [] xref: GO:0031904 xref: SAO:sao1547508851 is_a: NIF_Subcellular:sao1289190043 ! Cellular Space disjoint_from: NIF_Subcellular:sao-343550527 ! Mitochondrial Space disjoint_from: NIF_Subcellular:sao1819509473 ! RER Lumen disjoint_from: NIF_Subcellular:sao1908934319 ! Intranuclear Membrane Space disjoint_from: NIF_Subcellular:sao1956231674 ! Golgi Lumen disjoint_from: NIF_Subcellular:sao254777664 ! Schmidtt-Lanterman Cleft disjoint_from: NIF_Subcellular:sao797538226 ! Vesicle Lumen disjoint_from: NIF_Subcellular:sao927884761 ! SER Lumen property_value: http://www.w3.org/2004/02/skos/core#definition "The volume enclosed by the membranes of an endosome (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Endosomal Lumen" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0031904" xsd:string property_value: nif_annot:sao_ID "sao1547508851" xsd:string property_value: nif_obo_annot:synonym "endosome lumen" xsd:string [Term] id: NIF_Subcellular:sao1549842807 name: Secondary Lysosome namespace: birnlex_anatomy def: "Vacuole formed by the fusion of a lysosome with an organelle (autosome) or with a primary phagosome (Gene Ontology)." [] xref: GO:0005767 xref: SAO:sao1549842807 xref: UMLS:C0230815 is_a: NIF_Subcellular:sao585356902 ! Lysosome disjoint_from: NIF_Subcellular:sao1140587416 ! Primary Lysosome property_value: http://www.w3.org/2004/02/skos/core#definition "Vacuole formed by the fusion of a lysosome with an organelle (autosome) or with a primary phagosome (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Secondary Lysosome" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005767" xsd:string property_value: nif_annot:sao_ID "sao1549842807" xsd:string property_value: nif_annot:umls_ID "C0230815" xsd:string [Term] id: NIF_Subcellular:sao1570660411 name: Tubular Endosome namespace: birnlex_anatomy def: "Endosomal component consisting of cylindrical shaped tubues, ~50 nm in diameter, with smooth outer membranes an dark, grainy interiors (Clooney et al., 2002). Clathrin-like protein coats occur at the ends of some tubular compartments." [] xref: SAO:sao1570660411 is_a: NIF_Subcellular:sao1720343330 ! Endosome disjoint_from: NIF_Subcellular:sao1028571114 ! Sorting Endosome property_value: http://www.w3.org/2004/02/skos/core#definition "Endosomal component consisting of cylindrical shaped tubues, ~50 nm in diameter, with smooth outer membranes an dark, grainy interiors (Clooney et al., 2002). Clathrin-like protein coats occur at the ends of some tubular compartments." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Tubular Endosome" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1570660411" xsd:string [Term] id: NIF_Subcellular:sao1571698684 name: Barr Body namespace: birnlex_anatomy xref: SAO:sao1571698684 is_a: NIF_Subcellular:sao1499850686 ! Nuclear Subcomponent disjoint_from: NIF_Subcellular:sao1049471211 ! Interchromatin Granule disjoint_from: NIF_Subcellular:sao1455996588 ! Nuclear Lamina disjoint_from: NIF_Subcellular:sao1615953555 ! Chromatin disjoint_from: NIF_Subcellular:sao1687101204 ! Nuclear Membrane disjoint_from: NIF_Subcellular:sao1820400233 ! Nucleolus disjoint_from: NIF_Subcellular:sao220861693 ! Nuclear Pore disjoint_from: NIF_Subcellular:sao505137457 ! Nuclear Body disjoint_from: NIF_Subcellular:sao661522542 ! Nucleoplasm property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Barr Body" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1571698684" xsd:string [Term] id: NIF_Subcellular:sao1573004591 name: Peripheral Astrocyte Process namespace: birnlex_anatomy def: "Thin terminal processes of astrocytes found in sheathing, axon terminals, blood vessels, and pial surface of the brain." [] xref: SAO:sao1573004591 is_a: NIF_Subcellular:sao1630537580 ! Astrocyte Process disjoint_from: NIF_Subcellular:sao1189060993 ! Vellous Process property_value: http://www.w3.org/2004/02/skos/core#definition "Thin terminal processes of astrocytes found in sheathing, axon terminals, blood vessels, and pial surface of the brain." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Peripheral Astrocyte Process" xsd:string property_value: nif_annot:curationStatus "Thin terminal processes of astrocytes found in sheathing, axon terminals, blood vessels, and pial surface of the brain. These processes are characterized by few glial filiments or organelles and high concentrations of the actin-binding protein ezrin." xsd:string property_value: nif_annot:curationStatus "graph position temporary" xsd:string property_value: nif_annot:sao_ID "sao1573004591" xsd:string [Term] id: NIF_Subcellular:sao1579007712 name: Cell Interior namespace: birnlex_anatomy xref: SAO:sao1579007712 is_a: snap:Site disjoint_from: NIF_Subcellular:sao-1367457321 ! Mitochondrial Site disjoint_from: NIF_Subcellular:sao-596411490 ! Node Related Site disjoint_from: NIF_Subcellular:sao1049717962 ! Regional Part Of Neuronal Cell Body disjoint_from: NIF_Subcellular:sao1186862860 ! Basal Pole Of Neuron disjoint_from: NIF_Subcellular:sao1289190043 ! Cellular Space disjoint_from: NIF_Subcellular:sao1299635018 ! Cell Cell Contact Zone disjoint_from: NIF_Subcellular:sao1425028079 ! Extracellular Space disjoint_from: NIF_Subcellular:sao1877927224 ! Apical Pole Of Neuron disjoint_from: NIF_Subcellular:sao1922892319 ! Intercellular Junction Site disjoint_from: NIF_Subcellular:sao553711217 ! Spine Related Site property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Cell Interior" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1579007712" xsd:string [Term] id: NIF_Subcellular:sao1586851177 name: Regional Part Of Basket cell axon namespace: birnlex_anatomy def: "Terminal pre-synaptic ending of an axon or axon collateral." [] xref: SAO:sao1586851177 is_a: NIF_Subcellular:sao280355188 ! Regional Part Of Axon disjoint_from: NIF_Subcellular:sao1470140754 ! Axon Collateral disjoint_from: NIF_Subcellular:sao1596975044 ! Main Axon disjoint_from: NIF_Subcellular:sao2007137787 ! Axon Terminal disjoint_from: NIF_Subcellular:sao203987954 ! Axonal Growth Cone disjoint_from: NIF_Subcellular:sao256000789 ! Initial Segment disjoint_from: NIF_Subcellular:sao627227260 ! Axon Hillock property_value: http://www.w3.org/2004/02/skos/core#definition "Terminal pre-synaptic ending of an axon or axon collateral." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of Basket Cell Axon" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1586851177" xsd:string [Term] id: NIF_Subcellular:sao1588493326 name: Actin Filament namespace: birnlex_anatomy def: "A filamentous structure formed of a two-stranded helical polymer of the protein actin and associated proteins. Actin filaments are a major component of the contractile apparatus of skeletal muscle and the microfilaments of the cytoskeleton of eukaryotic cells. The filaments, comprising polymerized globular actin molecules, appear as flexible structures with a diameter of 5-9 nm. They are organized into a variety of linear bundles, two-dimensional networks, and three dimensional gels. In the cytoskeleton they are most highly concentrated in the cortex of the cell just beneath the plasma membrane (Gene Ontology)." [] xref: GO:0005884 xref: SAO:sao1588493326 xref: UMLS:C0025979 is_a: NIF_Subcellular:sao2006047981 ! Microfilament property_value: http://www.w3.org/2004/02/skos/core#definition "A filamentous structure formed of a two-stranded helical polymer of the protein actin and associated proteins. Actin filaments are a major component of the contractile apparatus of skeletal muscle and the microfilaments of the cytoskeleton of eukaryotic cells. The filaments, comprising polymerized globular actin molecules, appear as flexible structures with a diameter of 5-9 nm. They are organized into a variety of linear bundles, two-dimensional networks, and three dimensional gels. In the cytoskeleton they are most highly concentrated in the cortex of the cell just beneath the plasma membrane (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/act_filament_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Actin Filament" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005884" xsd:string property_value: nif_annot:sao_ID "sao1588493326" xsd:string property_value: nif_annot:umls_ID "C0025979" xsd:string [Term] id: NIF_Subcellular:sao1590928667 name: Regional Part Of Spiny Dendrite namespace: birnlex_anatomy xref: SAO:sao1590928667 is_a: NIF_Subcellular:sao183270081 ! Subregional Part Of Neuron Process disjoint_from: NIF_Subcellular:sao1791490892 ! Regional Part Of Myelinated Axon ! obsolete property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of Spiny Dendrite" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1590928667" xsd:string [Term] id: NIF_Subcellular:sao1594955670 name: Dendritic Growth Cone namespace: birnlex_anatomy xref: SAO:sao1594955670 is_a: NIF_Subcellular:sao28175134 ! Terminal Specialization disjoint_from: NIF_Subcellular:sao1340260079 ! Tuft disjoint_from: NIF_Subcellular:sao295057932 ! Dendriole property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/dend_growth_cone_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Dendritic Growth Cone" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1594955670" xsd:string [Term] id: NIF_Subcellular:sao1596955044 name: SER Membrane namespace: birnlex_anatomy def: "The lipid bilayer surrounding the smooth endoplasmic reticulum (Gene Ontology)." [] xref: GO:0030868 xref: SAO:sao1596955044 is_a: NIF_Subcellular:sao830981606 ! Intracellular Membrane property_value: http://www.w3.org/2004/02/skos/core#definition "The lipid bilayer surrounding the smooth endoplasmic reticulum (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "SER Membrane" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0030868" xsd:string property_value: nif_annot:sao_ID "sao1596955044" xsd:string [Term] id: NIF_Subcellular:sao1596975044 name: Main Axon namespace: birnlex_anatomy def: "Used to refer to the main axonal trunk, as opposed to the collaterals." [] xref: SAO:sao1596975044 is_a: NIF_Subcellular:sao280355188 ! Regional Part Of Axon disjoint_from: NIF_Subcellular:sao1470140754 ! Axon Collateral disjoint_from: NIF_Subcellular:sao1586851177 ! Regional Part Of Basket cell axon disjoint_from: NIF_Subcellular:sao2007137787 ! Axon Terminal disjoint_from: NIF_Subcellular:sao203987954 ! Axonal Growth Cone disjoint_from: NIF_Subcellular:sao256000789 ! Initial Segment disjoint_from: NIF_Subcellular:sao627227260 ! Axon Hillock property_value: http://www.w3.org/2004/02/skos/core#definition "Used to refer to the main axonal trunk, as opposed to the collaterals." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Main Axon" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1596975044" xsd:string [Term] id: NIF_Subcellular:sao1612527463 name: Nuclear Inner Membrane namespace: birnlex_anatomy def: "The inner, i.e. lumen-facing, lipid bilayer of the nuclear envelope (Gene Ontology)." [] xref: GO:0005637 xref: SAO:sao1612527463 is_a: NIF_Subcellular:sao1687101204 ! Nuclear Membrane disjoint_from: NIF_Subcellular:sao1617136075 ! Nuclear Outer Membrane property_value: http://www.w3.org/2004/02/skos/core#definition "The inner, i.e. lumen-facing, lipid bilayer of the nuclear envelope (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Nuclear Inner Membrane" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005637" xsd:string property_value: nif_annot:sao_ID "sao1612527463" xsd:string [Term] id: NIF_Subcellular:sao1615953555 name: Chromatin namespace: birnlex_anatomy def: "The ordered and organized complex of DNA and protein that forms the chromosome (Gene Ontology)." [] xref: GO:0000785 xref: SAO:sao1615953555 xref: UMLS:C0008546 is_a: NIF_Subcellular:sao1499850686 ! Nuclear Subcomponent disjoint_from: NIF_Subcellular:sao1049471211 ! Interchromatin Granule disjoint_from: NIF_Subcellular:sao1455996588 ! Nuclear Lamina disjoint_from: NIF_Subcellular:sao1571698684 ! Barr Body disjoint_from: NIF_Subcellular:sao1687101204 ! Nuclear Membrane disjoint_from: NIF_Subcellular:sao1820400233 ! Nucleolus disjoint_from: NIF_Subcellular:sao220861693 ! Nuclear Pore disjoint_from: NIF_Subcellular:sao505137457 ! Nuclear Body disjoint_from: NIF_Subcellular:sao661522542 ! Nucleoplasm property_value: http://www.w3.org/2004/02/skos/core#definition "The ordered and organized complex of DNA and protein that forms the chromosome (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Chromatin" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0000785" xsd:string property_value: nif_annot:sao_ID "sao1615953555" xsd:string property_value: nif_annot:umls_ID "C0008546" xsd:string [Term] id: NIF_Subcellular:sao1617136075 name: Nuclear Outer Membrane namespace: birnlex_anatomy def: "The outer, i.e. cytoplasm-facing, lipid bilayer of the nuclear envelope; continuous with the endoplasmic reticulum of the cell and sometimes studded with ribosomes (Gene Ontology)." [] xref: GO:0005640 xref: SAO:sao1617136075 is_a: NIF_Subcellular:sao1687101204 ! Nuclear Membrane disjoint_from: NIF_Subcellular:sao1612527463 ! Nuclear Inner Membrane property_value: http://www.w3.org/2004/02/skos/core#definition "The outer, i.e. cytoplasm-facing, lipid bilayer of the nuclear envelope; continuous with the endoplasmic reticulum of the cell and sometimes studded with ribosomes (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Nuclear Outer Membrane" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005640" xsd:string property_value: nif_annot:sao_ID "sao1617136075" xsd:string [Term] id: NIF_Subcellular:sao1630537580 name: Astrocyte Process namespace: birnlex_anatomy def: "Refers to processes of astrocytes extending from the cell soma that wrap around neurons and conform to cellular components in the neuropil." [] xref: SAO:sao1630537580 is_a: NIF_Subcellular:sao685712019 ! Regional Part Of Astrocyte property_value: http://www.w3.org/2004/02/skos/core#definition "Refers to processes of astrocytes extending from the cell soma that wrap around neurons and conform to cellular components in the neuropil." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/astrocyte_process_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Astrocyte Process" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1630537580" xsd:string [Term] id: NIF_Subcellular:sao1634374950 name: Hypolemmal Cisternae namespace: birnlex_anatomy def: "Specialized part of the smooth endoplasmic reticulum that closely underlies the plasma membrane, usually within 60 nm or closer (Peters, Palay and Webster, 1991)." [] xref: SAO:sao1634374950 is_a: NIF_Subcellular:sao-699412220 ! Regional Part Of SER property_value: http://www.w3.org/2004/02/skos/core#definition "Specialized part of the smooth endoplasmic reticulum that closely underlies the plasma membrane, usually within 60 nm or closer (Peters, Palay and Webster, 1991)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Hypolemmal Cisternae" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1634374950" xsd:string [Term] id: NIF_Subcellular:sao1635329413 name: Cytoskeletal Element namespace: birnlex_anatomy xref: SAO:sao1635329413 is_a: NIF_Subcellular:sao-1337158144 ! Cellular Component disjoint_from: NIF_Subcellular:sao1081228141 ! Glycogen Granule disjoint_from: NIF_Subcellular:sao11978067 ! Basal Body disjoint_from: NIF_Subcellular:sao120573470 ! Cellular Inclusion disjoint_from: NIF_Subcellular:sao1397492660 ! Basal Lamina disjoint_from: NIF_Subcellular:sao1539965131 ! Organelle disjoint_from: NIF_Subcellular:sao1663586795 ! Plasma Membrane disjoint_from: NIF_Subcellular:sao1784069613 ! Synaptic Component disjoint_from: NIF_Subcellular:sao1938587839 ! Subplasmalemmal Coating disjoint_from: NIF_Subcellular:sao1969557946 ! Coated Pit disjoint_from: NIF_Subcellular:sao221389602 ! Vesicle disjoint_from: NIF_Subcellular:sao628508602 ! Cellular Subcomponent disjoint_from: NIF_Subcellular:sao730872736 ! Dense Body disjoint_from: NIF_Subcellular:sao787716553 ! Cilium disjoint_from: NIF_Subcellular:sao830981606 ! Intracellular Membrane property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Cytoskeletal Element" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1635329413" xsd:string [Term] id: NIF_Subcellular:sao1642494436 name: Recurrent Collateral namespace: birnlex_anatomy def: "Axon collateral that ramifies in the area of the soma of the cell of origin." [] xref: SAO:sao1642494436 is_a: NIF_Subcellular:sao1470140754 ! Axon Collateral disjoint_from: NIF_Subcellular:sao1950673097 ! Schaffer Collateral property_value: http://www.w3.org/2004/02/skos/core#definition "Axon collateral that ramifies in the area of the soma of the cell of origin." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Recurrent Collateral" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1642494436" xsd:string [Term] id: NIF_Subcellular:sao1642908940 name: Spine Neck namespace: birnlex_anatomy synonym: "neck" EXACT [] synonym: "pedicle" EXACT [] xref: SAO:sao1642908940 is_a: NIF_Subcellular:sao866168499 ! Regional Part Of Spine disjoint_from: NIF_Subcellular:sao553737851 ! Spinule disjoint_from: NIF_Subcellular:sao952643730 ! Spine Head property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Spine Neck" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1642908940" xsd:string property_value: nif_obo_annot:synonym "neck" xsd:string property_value: nif_obo_annot:synonym "pedicle" xsd:string [Term] id: NIF_Subcellular:sao1663586795 name: Plasma Membrane namespace: birnlex_anatomy def: "The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins (Gene Ontology)." [] synonym: "cell membrane" EXACT [] xref: GO:0005886 xref: SAO:sao1663586795 xref: UMLS:C0007603 is_a: NIF_Subcellular:sao6433132645 ! Cellular Membrane disjoint_from: NIF_Subcellular:sao101633890 ! Cytosol disjoint_from: NIF_Subcellular:sao1081228141 ! Glycogen Granule disjoint_from: NIF_Subcellular:sao11978067 ! Basal Body disjoint_from: NIF_Subcellular:sao120573470 ! Cellular Inclusion disjoint_from: NIF_Subcellular:sao1397492660 ! Basal Lamina disjoint_from: NIF_Subcellular:sao1539965131 ! Organelle disjoint_from: NIF_Subcellular:sao1635329413 ! Cytoskeletal Element disjoint_from: NIF_Subcellular:sao1784069613 ! Synaptic Component disjoint_from: NIF_Subcellular:sao1938587839 ! Subplasmalemmal Coating disjoint_from: NIF_Subcellular:sao1969557946 ! Coated Pit disjoint_from: NIF_Subcellular:sao221389602 ! Vesicle disjoint_from: NIF_Subcellular:sao628508602 ! Cellular Subcomponent disjoint_from: NIF_Subcellular:sao730872736 ! Dense Body disjoint_from: NIF_Subcellular:sao787716553 ! Cilium disjoint_from: NIF_Subcellular:sao830981606 ! Intracellular Membrane property_value: http://www.w3.org/2004/02/skos/core#definition "The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/plas_memb2_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/plas_memb_3_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/plas_memb_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Plasma Membrane" xsd:string property_value: nif_annot:UmlsCui "C0007603" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005886" xsd:string property_value: nif_annot:sao_ID "sao1663586795" xsd:string property_value: nif_obo_annot:synonym "cell membrane" xsd:string [Term] id: NIF_Subcellular:sao1682692988 name: Regional Part Of Spine Apparatus namespace: birnlex_anatomy xref: SAO:sao1682692988 is_a: NIF_Subcellular:sao-1819020575 ! Regional Part Of Cell Component disjoint_from: NIF_Subcellular:sao-1686050947 ! Regional Part Of Mitochondrial Membrane disjoint_from: NIF_Subcellular:sao113580911 ! Regional Part Of Nucleolus disjoint_from: NIF_Subcellular:sao1546288504 ! Regional Part Of Golgi disjoint_from: NIF_Subcellular:sao2019617624 ! Regional Part Of RER property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of Spine Apparatus" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1682692988" xsd:string [Term] id: NIF_Subcellular:sao1683772610 name: Endosomal Subcomponent namespace: birnlex_anatomy xref: SAO:sao1683772610 is_a: NIF_Subcellular:sao628508602 ! Cellular Subcomponent property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Endosomal Subcomponent" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1683772610" xsd:string [Term] id: NIF_Subcellular:sao1684283879 name: Calyx Of Held namespace: birnlex_anatomy xref: SAO:sao1684283879 is_a: NIF_Subcellular:sao488120195 ! Calyx property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Calyx Of Held" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1684283879" xsd:string [Term] id: NIF_Subcellular:sao1687101204 name: Nuclear Membrane namespace: birnlex_anatomy def: "Either of the lipid bilayers that surround the nucleus and form the nuclear envelope; excludes the intermembrane space (Gene Ontology)." [] xref: GO:0031965 xref: SAO:sao1687101204 xref: UMLS:C0028584 is_a: NIF_Subcellular:sao830981606 ! Intracellular Membrane disjoint_from: NIF_Subcellular:sao1049471211 ! Interchromatin Granule disjoint_from: NIF_Subcellular:sao1455996588 ! Nuclear Lamina disjoint_from: NIF_Subcellular:sao1571698684 ! Barr Body disjoint_from: NIF_Subcellular:sao1615953555 ! Chromatin disjoint_from: NIF_Subcellular:sao1820400233 ! Nucleolus disjoint_from: NIF_Subcellular:sao220861693 ! Nuclear Pore disjoint_from: NIF_Subcellular:sao505137457 ! Nuclear Body disjoint_from: NIF_Subcellular:sao661522542 ! Nucleoplasm property_value: http://www.w3.org/2004/02/skos/core#definition "Either of the lipid bilayers that surround the nucleus and form the nuclear envelope; excludes the intermembrane space (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Nuclear Membrane" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0031965" xsd:string property_value: nif_annot:sao_ID "sao1687101204" xsd:string property_value: nif_annot:umls_ID "C0028584" xsd:string [Term] id: NIF_Subcellular:sao1702920020 name: Nucleus namespace: birnlex_anatomy def: "A membrane-bounded organelle of eukaryotic cells that contains the chromosomes. It is the primary site of DNA replication and RNA synthesis in the cell (Gene Ontology)." [] xref: GO:0005634 xref: SAO:sao1702920020 xref: UMLS:C0007610 is_a: NIF_Subcellular:sao414196390 ! Membrane Bound Organelle disjoint_from: NIF_Subcellular:sao1036339110 ! Endoplasmic Reticulum disjoint_from: NIF_Subcellular:sao1720343330 ! Endosome disjoint_from: NIF_Subcellular:sao1860313010 ! Mitochondrion disjoint_from: NIF_Subcellular:sao2045955158 ! Multivesicular Body disjoint_from: NIF_Subcellular:sao451912436 ! Golgi Apparatus disjoint_from: NIF_Subcellular:sao499555322 ! Peroxisome disjoint_from: NIF_Subcellular:sao585356902 ! Lysosome disjoint_from: NIF_Subcellular:sao725931194 ! Spine Apparatus property_value: http://www.w3.org/2004/02/skos/core#definition "A membrane-bounded organelle of eukaryotic cells that contains the chromosomes. It is the primary site of DNA replication and RNA synthesis in the cell (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/nucleus_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Nucleus" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005634" xsd:string property_value: nif_annot:sao_ID "sao1702920020" xsd:string property_value: nif_annot:umls_ID "C0007610" xsd:string [Term] id: NIF_Subcellular:sao1720343330 name: Endosome namespace: birnlex_anatomy def: "A membrane-bound organelle that carries materials newly ingested by endocytosis. It passes many of the materials to lysosomes for degradation (GO)." [] xref: GO:0005768 xref: SAO:sao1720343330 xref: UMLS:C0034850 is_a: NIF_Subcellular:sao414196390 ! Membrane Bound Organelle disjoint_from: NIF_Subcellular:sao1036339110 ! Endoplasmic Reticulum disjoint_from: NIF_Subcellular:sao1702920020 ! Nucleus disjoint_from: NIF_Subcellular:sao1860313010 ! Mitochondrion disjoint_from: NIF_Subcellular:sao2045955158 ! Multivesicular Body disjoint_from: NIF_Subcellular:sao451912436 ! Golgi Apparatus disjoint_from: NIF_Subcellular:sao499555322 ! Peroxisome disjoint_from: NIF_Subcellular:sao585356902 ! Lysosome disjoint_from: NIF_Subcellular:sao725931194 ! Spine Apparatus property_value: http://www.w3.org/2004/02/skos/core#definition "A membrane-bound organelle that carries materials newly ingested by endocytosis. It passes many of the materials to lysosomes for degradation (GO)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Endosome" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005768" xsd:string property_value: nif_annot:sao_ID "sao1720343330" xsd:string property_value: nif_annot:umls_ID "C0034850" xsd:string [Term] id: NIF_Subcellular:sao172297168 name: Dendritic Tree namespace: birnlex_anatomy def: "The entire complement of dendrites for a neuron, consisting of each primary dendrite and all its branches." [] xref: SAO:sao172297168 is_a: NIF_Subcellular:sao1970895398 ! Cell Regional Part Aggregate Object disjoint_from: NIF_Subcellular:sao2128156969 ! Spine Mat property_value: http://www.w3.org/2004/02/skos/core#definition "The entire complement of dendrites for a neuron, consisting of each primary dendrite and all its branches." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Dendritic Tree" xsd:string property_value: nif_annot:bonfire_ID "BF_C000102" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao172297168" xsd:string [Term] id: NIF_Subcellular:sao1730664005 name: Pre-synaptic Grid namespace: birnlex_anatomy def: "A hexagonal array of electron dense particles attched to the cyotplasmic face of the presynaptic membrane, revealed by staining with ethanolic phosphotungstic acid (Peters, Palay and Webster, 1991)." [] xref: SAO:sao1730664005 is_a: NIF_Subcellular:sao1911631652 ! Pre-synaptic Active Zone Component disjoint_from: NIF_Subcellular:sao1111202255 ! Pre-synaptic Dense Body disjoint_from: NIF_Subcellular:sao1470121605 ! Active Zone Cytomatrix disjoint_from: NIF_Subcellular:sao2038461087 ! Active Zone Plasma Membrane disjoint_from: NIF_Subcellular:sao494258938 ! Active Zone Dense Projection property_value: http://www.w3.org/2004/02/skos/core#definition "A hexagonal array of electron dense particles attched to the cyotplasmic face of the presynaptic membrane, revealed by staining with ethanolic phosphotungstic acid (Peters, Palay and Webster, 1991)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Pre-synaptic Grid" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1730664005" xsd:string [Term] id: NIF_Subcellular:sao1747012216 name: Orthogonal Array namespace: birnlex_anatomy def: "Square arrays of closely spaced intramembrane particles, 4-6 nm in size seen in astrocyte processes, now known to contain aquaporins." [] synonym: "square array" EXACT [] xref: SAO:sao1747012216 is_a: NIF_Subcellular:nlx_subcell_100315 ! Subcellular entity disjoint_from: NIF_Subcellular:sao1038025871 ! Polyribosome disjoint_from: NIF_Subcellular:sao445019788 ! Connexon property_value: http://www.w3.org/2004/02/skos/core#definition "Square arrays of closely spaced intramembrane particles, 4-6 nm in size seen in astrocyte processes, now known to contain aquaporins." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Orthogonal Array" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1747012216" xsd:string property_value: nif_obo_annot:synonym "square array" xsd:string [Term] id: NIF_Subcellular:sao1749953771 name: Tail Portion namespace: birnlex_anatomy def: "Elongated process, devoid of cytoplasmic extensions, that courses through the hypothalamic nucleis to form small endfoot processes that terminate either on blood vessels or at the pial surface of the brain (Peters, Palay and Webster, 1991)." [] xref: SAO:sao1749953771 is_a: NIF_Subcellular:sao877341397 ! Regional Part Of Tanycyte disjoint_from: NIF_Subcellular:sao1447478620 ! Pial Endfoot disjoint_from: NIF_Subcellular:sao2064469343 ! Vascular Endfoot disjoint_from: NIF_Subcellular:sao401910342 ! Somatic Portion property_value: http://www.w3.org/2004/02/skos/core#definition "Elongated process, devoid of cytoplasmic extensions, that courses through the hypothalamic nucleis to form small endfoot processes that terminate either on blood vessels or at the pial surface of the brain (Peters, Palay and Webster, 1991)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Tail Portion" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1749953771" xsd:string [Term] id: NIF_Subcellular:sao1770195789 name: Axon namespace: birnlex_anatomy def: "Cell appendage of a neuron that consists of an axon hillock, an axon proper, axon collaterals and an axon terminal (FMA)" [] xref: GO:0030424 xref: SAO:sao1770195789 xref: UMLS:C0004461 is_a: NIF_Subcellular:sao-867568886 ! Neuron Process disjoint_from: NIF_Subcellular:sao1211023249 ! Dendrite property_value: http://www.w3.org/2004/02/skos/core#definition "Cell appendage of a neuron that consists of an axon hillock, an axon proper, axon collaterals and an axon terminal (FMA)" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "The long process of a neuron that conducts nerve impulses, usually away from the cell body to the terminals which are the site of storage and release of neurotransmitter (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/axon_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Axon" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0030424" xsd:string property_value: nif_annot:sao_ID "sao1770195789" xsd:string property_value: nif_annot:umls_ID "C0004461" xsd:string [Term] id: NIF_Subcellular:sao1784069613 name: Synaptic Component namespace: birnlex_anatomy xref: SAO:sao1784069613 is_a: NIF_Subcellular:sao-1337158144 ! Cellular Component disjoint_from: NIF_Subcellular:sao101633890 ! Cytosol disjoint_from: NIF_Subcellular:sao1081228141 ! Glycogen Granule disjoint_from: NIF_Subcellular:sao11978067 ! Basal Body disjoint_from: NIF_Subcellular:sao120573470 ! Cellular Inclusion disjoint_from: NIF_Subcellular:sao1397492660 ! Basal Lamina disjoint_from: NIF_Subcellular:sao1539965131 ! Organelle disjoint_from: NIF_Subcellular:sao1635329413 ! Cytoskeletal Element disjoint_from: NIF_Subcellular:sao1663586795 ! Plasma Membrane disjoint_from: NIF_Subcellular:sao1938587839 ! Subplasmalemmal Coating disjoint_from: NIF_Subcellular:sao1969557946 ! Coated Pit disjoint_from: NIF_Subcellular:sao221389602 ! Vesicle disjoint_from: NIF_Subcellular:sao628508602 ! Cellular Subcomponent disjoint_from: NIF_Subcellular:sao730872736 ! Dense Body disjoint_from: NIF_Subcellular:sao787716553 ! Cilium disjoint_from: NIF_Subcellular:sao830981606 ! Intracellular Membrane property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Synaptic Component" xsd:string property_value: nif_annot:sao_ID "sao1784069613" xsd:string [Term] id: NIF_Subcellular:sao1791490892 name: Regional Part Of Myelinated Axon namespace: birnlex_anatomy is_obsolete: true xref: SAO:sao1791490892 disjoint_from: NIF_Subcellular:sao1590928667 ! Regional Part Of Spiny Dendrite property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of Myelinated Axon" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:hasFormerParentClass "NIF_Subcellular:sao183270081" xsd:string property_value: nif_annot:sao_ID "sao1791490892" xsd:string property_value: nif_obo_annot:modifiedDate "May 28, 2009" xsd:string [Term] id: NIF_Subcellular:sao1799103720 name: Dendritic Spine namespace: birnlex_anatomy def: "Protrusion from a dendrite. Spines are specialised subcellular compartments involved in the synaptic transmission. They are linked to the dendritic shaft by a restriction. Because of their bulb shape, they function as a biochemical and an electrical compartment. Spine remodeling is though to be involved in synaptic plasticity (Gene Ontology)." [] xref: GO:0043197 xref: SAO:sao1799103720 xref: UMLS:C0872341 is_a: NIF_Subcellular:sao1145756102 ! Spine disjoint_from: NIF_Subcellular:sao18239917 ! Axonal Spine disjoint_from: NIF_Subcellular:sao2048514053 ! Somatic Spine property_value: http://www.w3.org/2004/02/skos/core#definition "Protrusion from a dendrite. Spines are specialised subcellular compartments involved in the synaptic transmission. They are linked to the dendritic shaft by a restriction. Because of their bulb shape, they function as a biochemical and an electrical compartment. Spine remodeling is though to be involved in synaptic plasticity (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/dend_spine_ccdb_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/dend_spine_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Dendritic Spine" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0043197" xsd:string property_value: nif_annot:sao_ID "sao1799103720" xsd:string property_value: nif_annot:umls_ID "C0872341" xsd:string [Term] id: NIF_Subcellular:sao1804523077 name: Mitochondrial Matrix namespace: birnlex_anatomy def: "The gel-like material, with considerable fine structure, that lies in the matrix space, or lumen, of a mitochondrion. It contains the enzymes concerned with fatty-acid oxidation and enzymes of the tricarboxylic acid cycle (Gene Ontology)." [] xref: GO:0005759 xref: SAO:sao1804523077 xref: UMLS:C0230843 is_a: NIF_Subcellular:sao666410040 ! Mitochondrial Subcomponent disjoint_from: NIF_Subcellular:sao333328131 ! Cristae property_value: http://www.w3.org/2004/02/skos/core#definition "The gel-like material, with considerable fine structure, that lies in the matrix space, or lumen, of a mitochondrion. It contains the enzymes concerned with fatty-acid oxidation and enzymes of the tricarboxylic acid cycle (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Mitochondrial Matrix" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005759" xsd:string property_value: nif_annot:sao_ID "sao1804523077" xsd:string property_value: nif_annot:umls_ID "C0230843" xsd:string [Term] id: NIF_Subcellular:sao180601769 name: Cytoplasmic Vesicle namespace: birnlex_anatomy def: "A vesicle formed of membrane or protein, found in the cytoplasm of a cell (Gene Ontology)." [] xref: GO:0031410 xref: SAO:sao180601769 is_a: NIF_Subcellular:sao221389602 ! Vesicle property_value: http://www.w3.org/2004/02/skos/core#definition "A vesicle formed of membrane or protein, found in the cytoplasm of a cell (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Cytoplasmic Vesicle" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0031410" xsd:string property_value: nif_annot:sao_ID "sao180601769" xsd:string [Term] id: NIF_Subcellular:sao181458425 name: Glial Limiting Endfoot namespace: birnlex_anatomy def: "Process of astrocyte that extends to the surface of the central nervous system. Together, they form the glial limiting membrane or glial limitans." [] xref: SAO:sao181458425 is_a: NIF_Subcellular:sao388182739 ! Endfoot disjoint_from: NIF_Subcellular:sao2048701763 ! Perivascular Endfoot property_value: http://www.w3.org/2004/02/skos/core#definition "Process of astrocyte that extends to the surface of the central nervous system. Together, they form the glial limiting membrane or glial limitans." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Glial Limiting Endfoot" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao181458425" xsd:string [Term] id: NIF_Subcellular:sao1819509473 name: RER Lumen namespace: birnlex_anatomy def: "The volume enclosed by the membranes of the rough endoplasmic reticulum (Gene Ontology)." [] synonym: "rough endoplasmic reticulum lumen" EXACT [] xref: GO:0048237 xref: SAO:sao1819509473 is_a: NIF_Subcellular:sao1289190043 ! Cellular Space disjoint_from: NIF_Subcellular:sao-343550527 ! Mitochondrial Space disjoint_from: NIF_Subcellular:sao1547508851 ! Endosomal Lumen disjoint_from: NIF_Subcellular:sao1908934319 ! Intranuclear Membrane Space disjoint_from: NIF_Subcellular:sao1956231674 ! Golgi Lumen disjoint_from: NIF_Subcellular:sao254777664 ! Schmidtt-Lanterman Cleft disjoint_from: NIF_Subcellular:sao797538226 ! Vesicle Lumen disjoint_from: NIF_Subcellular:sao927884761 ! SER Lumen property_value: http://www.w3.org/2004/02/skos/core#definition "The volume enclosed by the membranes of the rough endoplasmic reticulum (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "RER Lumen" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0048237" xsd:string property_value: nif_annot:sao_ID "sao1819509473" xsd:string property_value: nif_obo_annot:synonym "rough endoplasmic reticulum lumen" xsd:string [Term] id: NIF_Subcellular:sao1820400233 name: Nucleolus namespace: birnlex_anatomy def: "A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome (Gene Ontology)." [] xref: GO:0005730 xref: SAO:sao1820400233 xref: UMLS:C0007609 is_a: NIF_Subcellular:sao1499850686 ! Nuclear Subcomponent disjoint_from: NIF_Subcellular:sao1049471211 ! Interchromatin Granule disjoint_from: NIF_Subcellular:sao1429207766 ! Ribosome disjoint_from: NIF_Subcellular:sao1455996588 ! Nuclear Lamina disjoint_from: NIF_Subcellular:sao1571698684 ! Barr Body disjoint_from: NIF_Subcellular:sao1615953555 ! Chromatin disjoint_from: NIF_Subcellular:sao1687101204 ! Nuclear Membrane disjoint_from: NIF_Subcellular:sao220861693 ! Nuclear Pore disjoint_from: NIF_Subcellular:sao505137457 ! Nuclear Body disjoint_from: NIF_Subcellular:sao661522542 ! Nucleoplasm disjoint_from: NIF_Subcellular:sao95019936 ! Centriole property_value: http://www.w3.org/2004/02/skos/core#definition "A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/nucleoli_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/nucleolus_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Nucleolus" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005730" xsd:string property_value: nif_annot:sao_ID "sao1820400233" xsd:string property_value: nif_annot:umls_ID "C0007609" xsd:string [Term] id: NIF_Subcellular:sao18239917 name: Axonal Spine namespace: birnlex_anatomy def: "Refers to spine that originates from the axon, usually the initial segment (Peters, Palay and Webster, 1991)." [] xref: SAO:sao18239917 is_a: NIF_Subcellular:sao1145756102 ! Spine disjoint_from: NIF_Subcellular:sao1799103720 ! Dendritic Spine disjoint_from: NIF_Subcellular:sao2048514053 ! Somatic Spine property_value: http://www.w3.org/2004/02/skos/core#definition "Refers to spine that originates from the axon, usually the initial segment (Peters, Palay and Webster, 1991)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Axonal Spine" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao18239917" xsd:string [Term] id: NIF_Subcellular:sao1825845900 name: Crista Junction namespace: birnlex_anatomy def: "Tubular structures of relatively uniform size that connect mitochondrial cristae to the inner mitchondrial membrane (Perkins and Ellisman, 2003)." [] xref: SAO:sao1825845900 is_a: NIF_Subcellular:sao-1367457321 ! Mitochondrial Site property_value: http://www.w3.org/2004/02/skos/core#definition "Tubular structures of relatively uniform size that connect mitochondrial cristae to the inner mitchondrial membrane (Perkins and Ellisman, 2003)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Crista Junction" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1825845900" xsd:string [Term] id: NIF_Subcellular:sao183270081 name: Subregional Part Of Neuron Process namespace: birnlex_anatomy def: "Subcompartment of a compartment." [] xref: SAO:sao183270081 is_a: NIF_Subcellular:sao-420949334 ! Regional Part Of Neuron Process disjoint_from: NIF_Subcellular:sao280355188 ! Regional Part Of Axon disjoint_from: NIF_Subcellular:sao420754792 ! Regional Part Of Dendrite property_value: http://www.w3.org/2004/02/skos/core#definition "Subcompartment of a compartment." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Subregional Part Of Neuron Process" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao183270081" xsd:string [Term] id: NIF_Subcellular:sao1841764412 name: Pars Fibrosa namespace: birnlex_anatomy def: "Portion of the nucleolus composed of densely matted filaments with scattered dark granules (Palay and Chan-Palay, 1974)." [] xref: SAO:sao1841764412 xref: UMLS:C0230581 is_a: NIF_Subcellular:sao113580911 ! Regional Part Of Nucleolus disjoint_from: NIF_Subcellular:sao1217793903 ! Pars Granulosa property_value: http://www.w3.org/2004/02/skos/core#definition "Portion of the nucleolus composed of densely matted filaments with scattered dark granules (Palay and Chan-Palay, 1974)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Pars Fibrosa" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1841764412" xsd:string property_value: nif_annot:umls_ID "C0230581" xsd:string [Term] id: NIF_Subcellular:sao1842028314 name: SER Subcomponent namespace: birnlex_anatomy xref: SAO:sao1842028314 is_a: NIF_Subcellular:sao628508602 ! Cellular Subcomponent property_value: http://www.w3.org/2004/02/skos/core#prefLabel "SER Subcomponent" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1842028314" xsd:string [Term] id: NIF_Subcellular:sao18461326 name: Inner Bounding Mitochondrial Membrane namespace: birnlex_anatomy def: "Part of mitochondrial inner membrane that runs parallel to the outer mitochondrial membrane" [] xref: SAO:sao18461326 is_a: NIF_Subcellular:sao-1686050947 ! Regional Part Of Mitochondrial Membrane property_value: http://www.w3.org/2004/02/skos/core#definition "Part of mitochondrial inner membrane that runs parallel to the outer mitochondrial membrane" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Inner Bounding Mitochondrial Membrane" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao18461326" xsd:string [Term] id: NIF_Subcellular:sao1846835077 name: Microtubule namespace: birnlex_anatomy def: "Any of the long, generally straight, hollow tubes of internal diameter 12-15 nm and external diameter 24 nm found in a wide variety of eukaryotic cells; each consists (usually) of 13 protofilaments of polymeric tubulin, staggered in such a manner that the tubulin monomers are arranged in a helical pattern on the microtubular surface, and with the alpha/beta axes of the tubulin subunits parallel to the long axis of the tubule; exist in equilibrium with pool of tubulin monomers and can be rapidly assembled or disassembled in response to physiological stimuli; concerned with force generation, e.g. in the spindle (Gene Ontology)." [] xref: GO:0005874 xref: SAO:sao1846835077 xref: UMLS:C0026046 is_a: NIF_Subcellular:sao1635329413 ! Cytoskeletal Element disjoint_from: NIF_Subcellular:sao2006047981 ! Microfilament disjoint_from: NIF_Subcellular:sao952483289 ! Intermediate Filament property_value: http://www.w3.org/2004/02/skos/core#definition "Any of the long, generally straight, hollow tubes of internal diameter 12-15 nm and external diameter 24 nm found in a wide variety of eukaryotic cells; each consists (usually) of 13 protofilaments of polymeric tubulin, staggered in such a manner that the tubulin monomers are arranged in a helical pattern on the microtubular surface, and with the alpha/beta axes of the tubulin subunits parallel to the long axis of the tubule; exist in equilibrium with pool of tubulin monomers and can be rapidly assembled or disassembled in response to physiological stimuli; concerned with force generation, e.g. in the spindle (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/microtubules_2_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/microtubules_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Microtubule" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005874" xsd:string property_value: nif_annot:sao_ID "sao1846835077" xsd:string property_value: nif_annot:umls_ID "C0026046" xsd:string [Term] id: NIF_Subcellular:sao1858501007 name: Bridge Contact Site namespace: birnlex_anatomy def: "Site of contact between the inner and outer mitochondrial membrane found in neuronal mitochondria; may play a role in maintaining the structural integrity of the inner and outer boundary membranes (Perkins and Ellisman, 2005)." [] xref: SAO:sao1858501007 is_a: NIF_Subcellular:sao-1367457321 ! Mitochondrial Site property_value: http://www.w3.org/2004/02/skos/core#definition "Site of contact between the inner and outer mitochondrial membrane found in neuronal mitochondria; may play a role in maintaining the structural integrity of the inner and outer boundary membranes (Perkins and Ellisman, 2005)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Bridge Contact Site" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1858501007" xsd:string [Term] id: NIF_Subcellular:sao1860313010 name: Mitochondrion namespace: birnlex_anatomy def: "A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration (Gene Ontology)." [] synonym: "mitochondria" EXACT [] xref: GO:0005739 xref: SAO:sao1860313010 xref: UMLS:C0026237 is_a: NIF_Subcellular:sao414196390 ! Membrane Bound Organelle disjoint_from: NIF_Subcellular:sao1036339110 ! Endoplasmic Reticulum disjoint_from: NIF_Subcellular:sao1702920020 ! Nucleus disjoint_from: NIF_Subcellular:sao1720343330 ! Endosome disjoint_from: NIF_Subcellular:sao2045955158 ! Multivesicular Body disjoint_from: NIF_Subcellular:sao451912436 ! Golgi Apparatus disjoint_from: NIF_Subcellular:sao499555322 ! Peroxisome disjoint_from: NIF_Subcellular:sao585356902 ! Lysosome disjoint_from: NIF_Subcellular:sao725931194 ! Spine Apparatus property_value: http://www.w3.org/2004/02/skos/core#definition "A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/mito_ccdb_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/mito_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Mitochondrion" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005739" xsd:string property_value: nif_annot:sao_ID "sao1860313010" xsd:string property_value: nif_annot:umls_ID "C0026237" xsd:string property_value: nif_obo_annot:synonym "mitochondria" xsd:string [Term] id: NIF_Subcellular:sao1872343973 name: Microtubule Fascicle namespace: birnlex_anatomy def: "Refers to a bundle of closely apposed microtubules running parallel to each other." [] xref: SAO:sao1872343973 is_a: NIF_Subcellular:sao1846835077 ! Microtubule disjoint_from: NIF_Subcellular:sao110773650 ! Dendritic Microtubule disjoint_from: NIF_Subcellular:sao248349196 ! Neurotubule property_value: http://www.w3.org/2004/02/skos/core#definition "Refers to a bundle of closely apposed microtubules running parallel to each other." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Microtubule Fascicle" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1872343973" xsd:string [Term] id: NIF_Subcellular:sao187426937 name: Synaptic Bouton namespace: birnlex_anatomy def: "Terminal pre-synaptic ending of an axon or axon collateral." [] xref: SAO:sao187426937 is_a: NIF_Subcellular:sao2007137787 ! Axon Terminal disjoint_from: NIF_Subcellular:sao488120195 ! Calyx property_value: http://www.w3.org/2004/02/skos/core#definition "Terminal pre-synaptic ending of an axon or axon collateral." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/syn_bouton_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Synaptic Bouton" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao187426937" xsd:string [Term] id: NIF_Subcellular:sao1877927224 name: Apical Pole Of Neuron namespace: birnlex_anatomy def: "Portion of a cell soma closest to the point where the apical dendrite emerges." [] xref: SAO:sao1877927224 is_a: snap:Site disjoint_from: NIF_Subcellular:sao-1367457321 ! Mitochondrial Site disjoint_from: NIF_Subcellular:sao-596411490 ! Node Related Site disjoint_from: NIF_Subcellular:sao1049717962 ! Regional Part Of Neuronal Cell Body disjoint_from: NIF_Subcellular:sao1186862860 ! Basal Pole Of Neuron disjoint_from: NIF_Subcellular:sao1289190043 ! Cellular Space disjoint_from: NIF_Subcellular:sao1299635018 ! Cell Cell Contact Zone disjoint_from: NIF_Subcellular:sao1425028079 ! Extracellular Space disjoint_from: NIF_Subcellular:sao1579007712 ! Cell Interior disjoint_from: NIF_Subcellular:sao1922892319 ! Intercellular Junction Site disjoint_from: NIF_Subcellular:sao553711217 ! Spine Related Site property_value: http://www.w3.org/2004/02/skos/core#definition "Portion of a cell soma closest to the point where the apical dendrite emerges." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Apical Pole Of Neuron" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1877927224" xsd:string [Term] id: NIF_Subcellular:sao1881364067 name: Rough Endoplasmic Reticulum namespace: birnlex_anatomy def: "The rough (or granular) ER has ribosomes adhering to the outer surface; the ribosomes are the site of translation of the mRNA for those proteins which are either to be retained within the cisternae (ER-resident proteins), the proteins of the lysosomes, or the proteins destined for export from the cell. Glycoproteins undergo their initial glycosylation within the cisternae (Gene Ontology)." [] synonym: "Nissl substance" EXACT [] xref: GO:0005791 xref: SAO:sao1881364067 xref: UMLS:C0230779 is_a: NIF_Subcellular:sao1036339110 ! Endoplasmic Reticulum disjoint_from: NIF_Subcellular:sao710427438 ! Smooth Endoplasmic Reticulum property_value: http://www.w3.org/2004/02/skos/core#definition "The rough (or granular) ER has ribosomes adhering to the outer surface; the ribosomes are the site of translation of the mRNA for those proteins which are either to be retained within the cisternae (ER-resident proteins), the proteins of the lysosomes, or the proteins destined for export from the cell. Glycoproteins undergo their initial glycosylation within the cisternae (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Rough Endoplasmic Reticulum" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005791" xsd:string property_value: nif_annot:sao_ID "sao1881364067" xsd:string property_value: nif_annot:umls_ID "C0230779" xsd:string property_value: nif_obo_annot:synonym "Nissl substance" xsd:string [Term] id: NIF_Subcellular:sao1884931180 name: Ribbon Synapse namespace: birnlex_anatomy def: "Type of synapse characterized by an electron-dense ribbon, lamella (bar) or spherical body in the presynaptic process cytoplasm (Sjostrand, 1953; Ladman, 1958; Gray and Pease, 1971). It usually sits in or just above an evaginated ridge of the terminal membrane...\" - Dowling (1987)" [] xref: SAO:sao1884931180 is_a: NIF_Subcellular:sao289211478 ! Chemical Synapse relationship: http://www.obofoundry.org/ro/ro.owl#has_part NIF_Subcellular:sao-1488888179 ! Pre-synaptic Ribbon relationship: http://www.obofoundry.org/ro/ro.owl#has_part NIF_Subcellular:sao1111202255 ! Pre-synaptic Dense Body property_value: http://www.w3.org/2004/02/skos/core#definition "Type of synapse characterized by an electron-dense ribbon, lamella (bar) or spherical body in the presynaptic process cytoplasm (Sjostrand, 1953; Ladman, 1958; Gray and Pease, 1971). It usually sits in or just above an evaginated ridge of the terminal membrane...\" - Dowling (1987)" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Ribbon Synapse" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1884931180" xsd:string [Term] id: NIF_Subcellular:sao1890444066 name: Schwann Cell Microvillus namespace: birnlex_anatomy def: "Small finger-like extension of the Schwann cell that contact the nodal membrane but are not closely apposed to each other like the paranodal lops (Sosinsky et al., 2005)" [] xref: SAO:sao1890444066 is_a: NIF_Subcellular:sao195217619 ! Regional Part Of Schwann Cell property_value: http://www.w3.org/2004/02/skos/core#definition "Small finger-like extension of the Schwann cell that contact the nodal membrane but are not closely apposed to each other like the paranodal lops (Sosinsky et al., 2005)" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Schwann Cell Microvillus" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1890444066" xsd:string [Term] id: NIF_Subcellular:sao1894609662 name: Regional Part Of Lewy Body namespace: birnlex_anatomy xref: SAO:sao1894609662 is_a: NIF_Subcellular:sao-1819020575 ! Regional Part Of Cell Component property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of Lewy Body" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1894609662" xsd:string [Term] id: NIF_Subcellular:sao1908934319 name: Intranuclear Membrane Space namespace: birnlex_anatomy def: "The space between the inner and outer nuclear membranes" [] xref: SAO:sao1908934319 is_a: NIF_Subcellular:sao1289190043 ! Cellular Space disjoint_from: NIF_Subcellular:sao-343550527 ! Mitochondrial Space disjoint_from: NIF_Subcellular:sao1547508851 ! Endosomal Lumen disjoint_from: NIF_Subcellular:sao1819509473 ! RER Lumen disjoint_from: NIF_Subcellular:sao1956231674 ! Golgi Lumen disjoint_from: NIF_Subcellular:sao254777664 ! Schmidtt-Lanterman Cleft disjoint_from: NIF_Subcellular:sao797538226 ! Vesicle Lumen disjoint_from: NIF_Subcellular:sao927884761 ! SER Lumen property_value: http://www.w3.org/2004/02/skos/core#definition "The space between the inner and outer nuclear membranes" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Intranuclear Membrane Space" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1908934319" xsd:string [Term] id: NIF_Subcellular:sao1911631652 name: Pre-synaptic Active Zone Component namespace: birnlex_anatomy xref: SAO:sao1911631652 is_a: NIF_Subcellular:sao386529203 ! Pre-synaptic Component property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Pre-synaptic Active Zone Component" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1911631652" xsd:string [Term] id: NIF_Subcellular:sao1922892319 name: Intercellular Junction Site namespace: birnlex_anatomy def: "The site of cell-cell contact containing a morphologically identified junctional complex joining the two cells." [] xref: GO:0005911 xref: SAO:sao1922892319 is_a: snap:Site disjoint_from: NIF_Subcellular:sao-1367457321 ! Mitochondrial Site disjoint_from: NIF_Subcellular:sao-596411490 ! Node Related Site disjoint_from: NIF_Subcellular:sao1049717962 ! Regional Part Of Neuronal Cell Body disjoint_from: NIF_Subcellular:sao1186862860 ! Basal Pole Of Neuron disjoint_from: NIF_Subcellular:sao1289190043 ! Cellular Space disjoint_from: NIF_Subcellular:sao1299635018 ! Cell Cell Contact Zone disjoint_from: NIF_Subcellular:sao1425028079 ! Extracellular Space disjoint_from: NIF_Subcellular:sao1579007712 ! Cell Interior disjoint_from: NIF_Subcellular:sao1877927224 ! Apical Pole Of Neuron disjoint_from: NIF_Subcellular:sao553711217 ! Spine Related Site property_value: http://www.w3.org/2004/02/skos/core#definition "The site of cell-cell contact containing a morphologically identified junctional complex joining the two cells." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Intercellular Junction Site" xsd:string property_value: nif_annot:curationStatus "core:definition incomplete" xsd:string property_value: nif_annot:gene_Ontology_ID "0005911" xsd:string property_value: nif_annot:sao_ID "sao1922892319" xsd:string [Term] id: NIF_Subcellular:sao1925368674 name: Pinocytic Vesicle namespace: birnlex_anatomy xref: SAO:sao1925368674 is_a: NIF_Subcellular:sao1362520468 ! Endocytic Vesicle disjoint_from: NIF_Subcellular:sao1241866791 ! Large Vesicle disjoint_from: NIF_Subcellular:sao1243595998 ! Clathrin Coated Endocytic Vesicle property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Pinocytic Vesicle" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1925368674" xsd:string [Term] id: NIF_Subcellular:sao1933817066 name: Mitochondrial Adhaerens Complex namespace: birnlex_anatomy def: "An adherens plaque attached by filamentous strands to mitochondrion found in large synaptic terminals in the calyc of Held. The peripheral membrane facing the plaque is flattened and faces the synaptic presynaptic membrane (Perkins and Ellisman, 2005)." [] xref: SAO:sao1933817066 is_a: NIF_Subcellular:sao666410040 ! Mitochondrial Subcomponent disjoint_from: NIF_Subcellular:sao1186327184 ! Mitochondrial Chromosome property_value: http://www.w3.org/2004/02/skos/core#definition "An adherens plaque attached by filamentous strands to mitochondrion found in large synaptic terminals in the calyc of Held. The peripheral membrane facing the plaque is flattened and faces the synaptic presynaptic membrane (Perkins and Ellisman, 2005)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Mitochondrial Adhaerens Complex" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1933817066" xsd:string [Term] id: NIF_Subcellular:sao1938587839 name: Subplasmalemmal Coating namespace: birnlex_anatomy def: "Electron dense material observed coating the cytoplasmic face of the plasma membrane in certain regions of a neuron, e.g., the axon initial segment; the nodal membrane at the Node of Ranvier" [] xref: SAO:sao1938587839 is_a: NIF_Subcellular:sao-1337158144 ! Cellular Component disjoint_from: NIF_Subcellular:sao101633890 ! Cytosol disjoint_from: NIF_Subcellular:sao1081228141 ! Glycogen Granule disjoint_from: NIF_Subcellular:sao11978067 ! Basal Body disjoint_from: NIF_Subcellular:sao120573470 ! Cellular Inclusion disjoint_from: NIF_Subcellular:sao1397492660 ! Basal Lamina disjoint_from: NIF_Subcellular:sao1539965131 ! Organelle disjoint_from: NIF_Subcellular:sao1635329413 ! Cytoskeletal Element disjoint_from: NIF_Subcellular:sao1663586795 ! Plasma Membrane disjoint_from: NIF_Subcellular:sao1784069613 ! Synaptic Component disjoint_from: NIF_Subcellular:sao1969557946 ! Coated Pit disjoint_from: NIF_Subcellular:sao221389602 ! Vesicle disjoint_from: NIF_Subcellular:sao628508602 ! Cellular Subcomponent disjoint_from: NIF_Subcellular:sao730872736 ! Dense Body disjoint_from: NIF_Subcellular:sao787716553 ! Cilium disjoint_from: NIF_Subcellular:sao830981606 ! Intracellular Membrane property_value: http://www.w3.org/2004/02/skos/core#definition "Electron dense material observed coating the cytoplasmic face of the plasma membrane in certain regions of a neuron, e.g., the axon initial segment; the nodal membrane at the Node of Ranvier" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Subplasmalemmal Coating" xsd:string property_value: nif_annot:curationStatus "core:definition incomplete" xsd:string property_value: nif_annot:sao_ID "sao1938587839" xsd:string property_value: nif_obo_annot:modifiedDate "2007-02-23" xsd:date [Term] id: NIF_Subcellular:sao1939999134 name: Zonula Occludens namespace: birnlex_anatomy def: "A belt-like region of very close contact between the plasma membranes of adjacent cells so that the intercellular space is completely occluded. They occur in epithelia and brain endothelia (Gene Ontology)." [] synonym: "tight junction" EXACT [] xref: GO:0005923 xref: SAO:sao1939999134 is_a: NIF_Subcellular:sao1922892319 ! Intercellular Junction Site disjoint_from: NIF_Subcellular:sao-946766835 ! Synaptic Site disjoint_from: NIF_Subcellular:sao118541872 ! Gap Junction disjoint_from: NIF_Subcellular:sao1400623473 ! Zonula Adhaerens disjoint_from: NIF_Subcellular:sao1956738165 ! Macular Adhaerentia disjoint_from: NIF_Subcellular:sao427941916 ! Septate Junction property_value: http://www.w3.org/2004/02/skos/core#definition "A belt-like region of very close contact between the plasma membranes of adjacent cells so that the intercellular space is completely occluded. They occur in epithelia and brain endothelia (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Zonula Occludens" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005923" xsd:string property_value: nif_annot:sao_ID "sao1939999134" xsd:string property_value: nif_obo_annot:synonym "tight junction" xsd:string [Term] id: NIF_Subcellular:sao1943947957 name: Peg And Socket Contact namespace: birnlex_anatomy def: "Contact between endothelial cell and pericyte consisting of membrane invaginations extending from either cell type, which contain tight-, gap-, and adherence junctions (Armulik et al., Circ Res 97: 512, 2005)." [] xref: SAO:sao1943947957 is_a: NIF_Subcellular:sao1299635018 ! Cell Cell Contact Zone disjoint_from: NIF_Subcellular:sao1152983960 ! Intercalated Disk property_value: http://www.w3.org/2004/02/skos/core#definition "Contact between endothelial cell and pericyte consisting of membrane invaginations extending from either cell type, which contain tight-, gap-, and adherence junctions (Armulik et al., Circ Res 97: 512, 2005)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Peg And Socket Contact" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1943947957" xsd:string [Term] id: NIF_Subcellular:sao1950673097 name: Schaffer Collateral namespace: birnlex_anatomy def: "Axon collateral of CA3 pyramidal neurons that project to CA1 and synapse in the zona radiatum." [] xref: SAO:sao1950673097 is_a: NIF_Subcellular:sao1470140754 ! Axon Collateral disjoint_from: NIF_Subcellular:sao1642494436 ! Recurrent Collateral property_value: http://www.w3.org/2004/02/skos/core#definition "Axon collateral of CA3 pyramidal neurons that project to CA1 and synapse in the zona radiatum." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Schaffer Collateral" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1950673097" xsd:string [Term] id: NIF_Subcellular:sao195217619 name: Regional Part Of Schwann Cell namespace: birnlex_anatomy xref: SAO:sao195217619 is_a: NIF_Subcellular:sao895885284 ! Regional Part Of Glial Cell disjoint_from: NIF_Subcellular:sao1253297813 ! Glial Subcompartment disjoint_from: NIF_Subcellular:sao685712019 ! Regional Part Of Astrocyte disjoint_from: NIF_Subcellular:sao831502550 ! Regional Part Of Oligodendrocyte property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of Schwann Cell" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao195217619" xsd:string [Term] id: NIF_Subcellular:sao1956231674 name: Golgi Lumen namespace: birnlex_anatomy xref: SAO:sao1956231674 is_a: NIF_Subcellular:sao1289190043 ! Cellular Space disjoint_from: NIF_Subcellular:sao-343550527 ! Mitochondrial Space disjoint_from: NIF_Subcellular:sao1547508851 ! Endosomal Lumen disjoint_from: NIF_Subcellular:sao1819509473 ! RER Lumen disjoint_from: NIF_Subcellular:sao1908934319 ! Intranuclear Membrane Space disjoint_from: NIF_Subcellular:sao254777664 ! Schmidtt-Lanterman Cleft disjoint_from: NIF_Subcellular:sao797538226 ! Vesicle Lumen disjoint_from: NIF_Subcellular:sao927884761 ! SER Lumen property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Golgi Lumen" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1956231674" xsd:string [Term] id: NIF_Subcellular:sao1956738165 name: Macular Adhaerentia namespace: birnlex_anatomy xref: SAO:sao1956738165 is_a: NIF_Subcellular:sao1922892319 ! Intercellular Junction Site disjoint_from: NIF_Subcellular:sao-946766835 ! Synaptic Site disjoint_from: NIF_Subcellular:sao118541872 ! Gap Junction disjoint_from: NIF_Subcellular:sao1400623473 ! Zonula Adhaerens disjoint_from: NIF_Subcellular:sao1939999134 ! Zonula Occludens disjoint_from: NIF_Subcellular:sao427941916 ! Septate Junction property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Macular Adhaerentia" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1956738165" xsd:string property_value: nif_obo_annot:pendingActionNote "Look into the relationship of Macular and zonula adhaerentia and determine whether they are all subclasses of adhaerent junction" xsd:string [Term] id: NIF_Subcellular:sao1969557946 name: Coated Pit namespace: birnlex_anatomy def: "Specialized sites on the plasma membrane exhibiting a clathrin coat; likely vesicles in the process of pinching off (Conner and Schmid, 2003)." [] xref: SAO:sao1969557946 xref: UMLS:C0009143 is_a: NIF_Subcellular:sao-1337158144 ! Cellular Component disjoint_from: NIF_Subcellular:sao1081228141 ! Glycogen Granule disjoint_from: NIF_Subcellular:sao11978067 ! Basal Body disjoint_from: NIF_Subcellular:sao120573470 ! Cellular Inclusion disjoint_from: NIF_Subcellular:sao1397492660 ! Basal Lamina disjoint_from: NIF_Subcellular:sao1539965131 ! Organelle disjoint_from: NIF_Subcellular:sao1635329413 ! Cytoskeletal Element disjoint_from: NIF_Subcellular:sao1663586795 ! Plasma Membrane disjoint_from: NIF_Subcellular:sao1784069613 ! Synaptic Component disjoint_from: NIF_Subcellular:sao1938587839 ! Subplasmalemmal Coating disjoint_from: NIF_Subcellular:sao221389602 ! Vesicle disjoint_from: NIF_Subcellular:sao628508602 ! Cellular Subcomponent disjoint_from: NIF_Subcellular:sao730872736 ! Dense Body disjoint_from: NIF_Subcellular:sao787716553 ! Cilium disjoint_from: NIF_Subcellular:sao830981606 ! Intracellular Membrane property_value: http://www.w3.org/2004/02/skos/core#definition "Specialized sites on the plasma membrane exhibiting a clathrin coat; likely vesicles in the process of pinching off (Conner and Schmid, 2003)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Coated Pit" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1969557946" xsd:string property_value: nif_annot:umls_ID "C0009143" xsd:string [Term] id: NIF_Subcellular:sao1970895398 name: Cell Regional Part Aggregate Object namespace: birnlex_anatomy xref: SAO:sao1970895398 is_a: NIF_Subcellular:sao340271629 ! Regional Part Of Cell disjoint_from: NIF_Subcellular:sao508165343 ! Supra Cellular Structure disjoint_from: NIF_Subcellular:sao991156472 ! Cell Component Aggregate Object ! obsolete property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Cell Regional Part Aggregate Object" xsd:string property_value: nif_annot:sao_ID "sao1970895398" xsd:string [Term] id: NIF_Subcellular:sao1974433376 name: Regional Part Of Epithelial Cell namespace: birnlex_anatomy xref: SAO:sao1974433376 xref: UMLS:C0932419 is_a: NIF_Subcellular:sao340271629 ! Regional Part Of Cell disjoint_from: NIF_Subcellular:sao877341397 ! Regional Part Of Tanycyte property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of Epithelial Cell" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao1974433376" xsd:string property_value: nif_annot:umls_ID "C0932419" xsd:string [Term] id: NIF_Subcellular:sao2006047981 name: Microfilament namespace: birnlex_anatomy def: "A two-stranded helical polymer of the protein actin. Actin filaments are a major component of the contractile apparatus of skeletal muscle and the microfilaments of the cytoskeleton of eukaryotic cells. The filaments, comprising polymerized globular actin molecules, appear as flexible structures with a diameter of 5-9 nm. They are organized into a variety of linear bundles, two-dimensional networks, and three dimensional gels. In the cytoskeleton they are most highly concentrated in the cortex of the cell just beneath the plasma membrane. Reference(s): ISBN:0198506732 PMID:10666339 (GO)" [] xref: SAO:sao2006047981 xref: UMLS:C0025979 is_a: NIF_Subcellular:sao1635329413 ! Cytoskeletal Element disjoint_from: NIF_Subcellular:sao1846835077 ! Microtubule disjoint_from: NIF_Subcellular:sao952483289 ! Intermediate Filament property_value: http://www.w3.org/2004/02/skos/core#definition "A two-stranded helical polymer of the protein actin. Actin filaments are a major component of the contractile apparatus of skeletal muscle and the microfilaments of the cytoskeleton of eukaryotic cells. The filaments, comprising polymerized globular actin molecules, appear as flexible structures with a diameter of 5-9 nm. They are organized into a variety of linear bundles, two-dimensional networks, and three dimensional gels. In the cytoskeleton they are most highly concentrated in the cortex of the cell just beneath the plasma membrane. Reference(s): ISBN:0198506732 PMID:10666339 (GO)" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Microfilament" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao2006047981" xsd:string property_value: nif_annot:umls_ID "C0025979" xsd:string [Term] id: NIF_Subcellular:sao2007137787 name: Axon Terminal namespace: birnlex_anatomy def: "The distal terminations of axons which are specialized for the release of neurotransmitters. Also included are varicosities along the course of axons which have similar specializations and also release transmitters. Presynaptic terminals in both the central and peripheral nervous systems are included (MSH)." [] xref: SAO:sao2007137787 is_a: NIF_Subcellular:sao280355188 ! Regional Part Of Axon disjoint_from: NIF_Subcellular:sao1470140754 ! Axon Collateral disjoint_from: NIF_Subcellular:sao1586851177 ! Regional Part Of Basket cell axon disjoint_from: NIF_Subcellular:sao1596975044 ! Main Axon disjoint_from: NIF_Subcellular:sao203987954 ! Axonal Growth Cone disjoint_from: NIF_Subcellular:sao256000789 ! Initial Segment disjoint_from: NIF_Subcellular:sao627227260 ! Axon Hillock property_value: http://www.w3.org/2004/02/skos/core#definition "The distal terminations of axons which are specialized for the release of neurotransmitters. Also included are varicosities along the course of axons which have similar specializations and also release transmitters. Presynaptic terminals in both the central and peripheral nervous systems are included (MSH)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/axon_term_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Axon Terminal" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao2007137787" xsd:string [Term] id: NIF_Subcellular:sao2017162875 name: Age Associated namespace: birnlex_anatomy xref: SAO:sao2017162875 is_a: NIF_Subcellular:sao120573470 ! Cellular Inclusion property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Age Associated" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao2017162875" xsd:string [Term] id: NIF_Subcellular:sao2019617624 name: Regional Part Of RER namespace: birnlex_anatomy def: "Specialized ribosome-free subdomains of synthetic endoplasmic reticulum where cargo is concentrated into vesicles tha bud from the endoplasmic reticulum for tranport to the Golgi (Horton and Ehlers, 2004)." [] xref: SAO:sao2019617624 is_a: NIF_Subcellular:sao-1819020575 ! Regional Part Of Cell Component disjoint_from: NIF_Subcellular:sao-1686050947 ! Regional Part Of Mitochondrial Membrane disjoint_from: NIF_Subcellular:sao113580911 ! Regional Part Of Nucleolus disjoint_from: NIF_Subcellular:sao1546288504 ! Regional Part Of Golgi disjoint_from: NIF_Subcellular:sao1682692988 ! Regional Part Of Spine Apparatus property_value: http://www.w3.org/2004/02/skos/core#definition "Specialized ribosome-free subdomains of synthetic endoplasmic reticulum where cargo is concentrated into vesicles tha bud from the endoplasmic reticulum for tranport to the Golgi (Horton and Ehlers, 2004)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of RER" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao2019617624" xsd:string [Term] id: NIF_Subcellular:sao2031592629 name: Neurosecretory Vesicle namespace: birnlex_anatomy def: "Large dense cored vesicles, up to 150-200 nm in diameter found in neurosecretory cells in the hypothalamus. The electron dense appearance is dependent upon fixation (Peters, Palay and Webster, 1991)." [] xref: SAO:sao2031592629 is_a: NIF_Subcellular:sao478230652 ! Granular Vesicle disjoint_from: NIF_Subcellular:sao772007592 ! Dense Core Vesicle property_value: http://www.w3.org/2004/02/skos/core#definition "Large dense cored vesicles, up to 150-200 nm in diameter found in neurosecretory cells in the hypothalamus. The electron dense appearance is dependent upon fixation (Peters, Palay and Webster, 1991)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Neurosecretory Vesicle" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao2031592629" xsd:string [Term] id: NIF_Subcellular:sao2034472720 name: Dendritic Shaft namespace: birnlex_anatomy def: "Cylindric portion of the dendrite, directly stemming from the perikaryon, and carrying the dendritic spines (Gene Ontology)." [] xref: GO:0043198 xref: SAO:sao2034472720 is_a: NIF_Subcellular:sao1590928667 ! Regional Part Of Spiny Dendrite property_value: http://www.w3.org/2004/02/skos/core#definition "Cylindric portion of the dendrite, directly stemming from the perikaryon, and carrying the dendritic spines (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/dend_shaft_ccdb_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Dendritic Shaft" xsd:string property_value: nif_annot:bonfire_ID "BF_C000106" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0043198" xsd:string property_value: nif_annot:sao_ID "sao2034472720" xsd:string [Term] id: NIF_Subcellular:sao2038461087 name: Active Zone Plasma Membrane namespace: birnlex_anatomy def: "Plasma membrane juxtaposed to the PSD where synaptic vesicle fusion occurs (Zhai and Bellen, 2004)." [] xref: SAO:sao2038461087 is_a: NIF_Subcellular:sao1911631652 ! Pre-synaptic Active Zone Component disjoint_from: NIF_Subcellular:sao1470121605 ! Active Zone Cytomatrix disjoint_from: NIF_Subcellular:sao1730664005 ! Pre-synaptic Grid disjoint_from: NIF_Subcellular:sao494258938 ! Active Zone Dense Projection property_value: http://www.w3.org/2004/02/skos/core#definition "Plasma membrane juxtaposed to the PSD where synaptic vesicle fusion occurs (Zhai and Bellen, 2004)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Active Zone Plasma Membrane" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao2038461087" xsd:string [Term] id: NIF_Subcellular:sao203987954 name: Axonal Growth Cone namespace: birnlex_anatomy xref: SAO:sao203987954 is_a: NIF_Subcellular:sao280355188 ! Regional Part Of Axon disjoint_from: NIF_Subcellular:sao1470140754 ! Axon Collateral disjoint_from: NIF_Subcellular:sao1586851177 ! Regional Part Of Basket cell axon disjoint_from: NIF_Subcellular:sao1596975044 ! Main Axon disjoint_from: NIF_Subcellular:sao2007137787 ! Axon Terminal disjoint_from: NIF_Subcellular:sao256000789 ! Initial Segment disjoint_from: NIF_Subcellular:sao627227260 ! Axon Hillock property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Axonal Growth Cone" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao203987954" xsd:string [Term] id: NIF_Subcellular:sao2045955158 name: Multivesicular Body namespace: birnlex_anatomy def: "A type of late endosome in which regions of the limiting endosomal membrane invaginate to form internal vesicles; membrane proteins that enter the internal vesicles are sequestered from the cytoplasm (Gene Ontology)." [] xref: GO:0005771 xref: SAO:sao2045955158 xref: UMLS:C0230825 is_a: NIF_Subcellular:sao414196390 ! Membrane Bound Organelle disjoint_from: NIF_Subcellular:sao1036339110 ! Endoplasmic Reticulum disjoint_from: NIF_Subcellular:sao1702920020 ! Nucleus disjoint_from: NIF_Subcellular:sao1720343330 ! Endosome disjoint_from: NIF_Subcellular:sao1860313010 ! Mitochondrion disjoint_from: NIF_Subcellular:sao451912436 ! Golgi Apparatus disjoint_from: NIF_Subcellular:sao499555322 ! Peroxisome disjoint_from: NIF_Subcellular:sao585356902 ! Lysosome disjoint_from: NIF_Subcellular:sao725931194 ! Spine Apparatus property_value: http://www.w3.org/2004/02/skos/core#definition "A type of late endosome in which regions of the limiting endosomal membrane invaginate to form internal vesicles; membrane proteins that enter the internal vesicles are sequestered from the cytoplasm (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/multives_bodies_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/mutlivesicular_body_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Multivesicular Body" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005771" xsd:string property_value: nif_annot:sao_ID "sao2045955158" xsd:string property_value: nif_annot:umls_ID "C0230825" xsd:string [Term] id: NIF_Subcellular:sao2048514053 name: Somatic Spine namespace: birnlex_anatomy def: "Spine emanating from the cell soma." [] xref: SAO:sao2048514053 is_a: NIF_Subcellular:sao1145756102 ! Spine disjoint_from: NIF_Subcellular:sao1799103720 ! Dendritic Spine disjoint_from: NIF_Subcellular:sao18239917 ! Axonal Spine property_value: http://www.w3.org/2004/02/skos/core#definition "Spine emanating from the cell soma." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/somatic_spine_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Somatic Spine" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao2048514053" xsd:string [Term] id: NIF_Subcellular:sao2048701763 name: Perivascular Endfoot namespace: birnlex_anatomy xref: SAO:sao2048701763 is_a: NIF_Subcellular:sao388182739 ! Endfoot disjoint_from: NIF_Subcellular:sao181458425 ! Glial Limiting Endfoot property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Perivascular Endfoot" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao2048701763" xsd:string [Term] id: NIF_Subcellular:sao205380252 name: Neuropil namespace: birnlex_anatomy def: "A dense intricate feltwork of interwoven fine glial processes, fibrils, synaptic terminals, axons, and dendrites interspersed among the nerve cells in the gray matter of the central nervous system (MSH)." [] xref: SAO:sao205380252 xref: UMLS:C0228081 is_a: NIF_Subcellular:sao508165343 ! Supra Cellular Structure disjoint_from: NIF_Subcellular:sao1395777368 ! Intercellular Junction disjoint_from: NIF_Subcellular:sao732341560 ! Pinceau property_value: http://www.w3.org/2004/02/skos/core#definition "A dense intricate feltwork of interwoven fine glial processes, fibrils, synaptic terminals, axons, and dendrites interspersed among the nerve cells in the gray matter of the central nervous system (MSH)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/neuropil_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Neuropil" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao205380252" xsd:string property_value: nif_annot:umls_ID "C0228081" xsd:string [Term] id: NIF_Subcellular:sao2064469343 name: Vascular Endfoot namespace: birnlex_anatomy xref: SAO:sao2064469343 is_a: NIF_Subcellular:sao877341397 ! Regional Part Of Tanycyte disjoint_from: NIF_Subcellular:sao1447478620 ! Pial Endfoot disjoint_from: NIF_Subcellular:sao1749953771 ! Tail Portion disjoint_from: NIF_Subcellular:sao401910342 ! Somatic Portion property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/vasc_endfoot_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Vascular Endfoot" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao2064469343" xsd:string [Term] id: NIF_Subcellular:sao2108323256 name: Pre-synaptic Site namespace: birnlex_anatomy xref: SAO:sao2108323256 is_a: NIF_Subcellular:sao-946766835 ! Synaptic Site property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Pre-synaptic Site" xsd:string property_value: nif_annot:sao_ID "sao2108323256" xsd:string [Term] id: NIF_Subcellular:sao2114874506 name: Membrane Stack namespace: birnlex_anatomy def: "A configuration of ER found in Purkinje cells in the cerebellum and in axons in the lateral vestibular nucleus, consisting of a number of parallel and interconnecting tubules whose outer surfaces are covered by particles or ringlike structures (Peters, Palay and Webster, 1991)." [] xref: SAO:sao2114874506 is_a: NIF_Subcellular:nlx_subcell_100315 ! Subcellular entity property_value: http://www.w3.org/2004/02/skos/core#definition "A configuration of ER found in Purkinje cells in the cerebellum and in axons in the lateral vestibular nucleus, consisting of a number of parallel and interconnecting tubules whose outer surfaces are covered by particles or ringlike structures (Peters, Palay and Webster, 1991)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Membrane Stack" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao2114874506" xsd:string [Term] id: NIF_Subcellular:sao2127666702 name: Mesaxon namespace: birnlex_anatomy def: "Portion of the ensheathing process (either myelin or non-myelin) where the enveloping lips of the ensheathing cell come together so that their apposed plasma membranes run parallel to each other, separated by a cleft 12 nm wide (Peters, Palay and Webster, 1991)." [] xref: SAO:sao2127666702 is_a: NIF_Subcellular:sao195217619 ! Regional Part Of Schwann Cell property_value: http://www.w3.org/2004/02/skos/core#definition "Portion of the ensheathing process (either myelin or non-myelin) where the enveloping lips of the ensheathing cell come together so that their apposed plasma membranes run parallel to each other, separated by a cleft 12 nm wide (Peters, Palay and Webster, 1991)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Mesaxon" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao2127666702" xsd:string [Term] id: NIF_Subcellular:sao2128156969 name: Spine Mat namespace: birnlex_anatomy def: "A configuration of somatic spines found on ciliary ganglion neurons in the embryonic and adult brain consisting of patches of closely spaced spines lying flat against the soma. (Shoop et al., 2000)." [] xref: SAO:sao2128156969 is_a: NIF_Subcellular:sao1970895398 ! Cell Regional Part Aggregate Object disjoint_from: NIF_Subcellular:sao172297168 ! Dendritic Tree property_value: dc:contributor "Maryann Martone" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "A configuration of somatic spines found on ciliary ganglion neurons in the embryonic and adult brain consisting of patches of closely spaced spines lying flat against the soma. (Shoop et al., 2000)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Spine Mat" xsd:string property_value: nif_annot:sao_ID "sao2128156969" xsd:string property_value: nif_obo_annot:createdDate "2007-02-09" xsd:date [Term] id: NIF_Subcellular:sao2135015805 name: Extracellular Surface namespace: birnlex_anatomy xref: SAO:sao2135015805 is_a: NIF_Subcellular:sao1329750433 ! Membrane Surface disjoint_from: NIF_Subcellular:sao120818728 ! Lumenal Surface disjoint_from: NIF_Subcellular:sao1514682949 ! Cytoplasmic Surface property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Extracellular Surface" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao2135015805" xsd:string [Term] id: NIF_Subcellular:sao220861693 name: Nuclear Pore namespace: birnlex_anatomy def: "Any of the numerous similar discrete openings in the nuclear envelope of a eukaryotic cell, where the inner and outer nuclear membranes are joined (Gene Ontology)." [] xref: GO:0005643 xref: SAO:sao220861693 xref: UMLS:C0028587 is_a: NIF_Subcellular:sao1499850686 ! Nuclear Subcomponent disjoint_from: NIF_Subcellular:sao1049471211 ! Interchromatin Granule disjoint_from: NIF_Subcellular:sao1455996588 ! Nuclear Lamina disjoint_from: NIF_Subcellular:sao1571698684 ! Barr Body disjoint_from: NIF_Subcellular:sao1615953555 ! Chromatin disjoint_from: NIF_Subcellular:sao1687101204 ! Nuclear Membrane disjoint_from: NIF_Subcellular:sao1820400233 ! Nucleolus disjoint_from: NIF_Subcellular:sao505137457 ! Nuclear Body disjoint_from: NIF_Subcellular:sao661522542 ! Nucleoplasm property_value: http://www.w3.org/2004/02/skos/core#definition "Any of the numerous similar discrete openings in the nuclear envelope of a eukaryotic cell, where the inner and outer nuclear membranes are joined (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/nucl_pore_2_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/nucl_pore_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Nuclear Pore" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005643" xsd:string property_value: nif_annot:sao_ID "sao220861693" xsd:string property_value: nif_annot:umls_ID "C0028587" xsd:string [Term] id: NIF_Subcellular:sao221389602 name: Vesicle namespace: birnlex_anatomy def: "Any small, fluid-filled, spherical organelle enclosed by membrane or protein (Gene Ontology)." [] xref: GO:0031982 xref: SAO:sao221389602 xref: UMLS:C0042219 is_a: NIF_Subcellular:sao-1337158144 ! Cellular Component disjoint_from: NIF_Subcellular:sao101633890 ! Cytosol disjoint_from: NIF_Subcellular:sao1081228141 ! Glycogen Granule disjoint_from: NIF_Subcellular:sao11978067 ! Basal Body disjoint_from: NIF_Subcellular:sao120573470 ! Cellular Inclusion disjoint_from: NIF_Subcellular:sao1397492660 ! Basal Lamina disjoint_from: NIF_Subcellular:sao1539965131 ! Organelle disjoint_from: NIF_Subcellular:sao1635329413 ! Cytoskeletal Element disjoint_from: NIF_Subcellular:sao1663586795 ! Plasma Membrane disjoint_from: NIF_Subcellular:sao1784069613 ! Synaptic Component disjoint_from: NIF_Subcellular:sao1938587839 ! Subplasmalemmal Coating disjoint_from: NIF_Subcellular:sao1969557946 ! Coated Pit disjoint_from: NIF_Subcellular:sao628508602 ! Cellular Subcomponent disjoint_from: NIF_Subcellular:sao730872736 ! Dense Body disjoint_from: NIF_Subcellular:sao787716553 ! Cilium disjoint_from: NIF_Subcellular:sao830981606 ! Intracellular Membrane property_value: http://www.w3.org/2004/02/skos/core#definition "Any small, fluid-filled, spherical organelle enclosed by membrane or protein (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Vesicle" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0031982" xsd:string property_value: nif_annot:sao_ID "sao221389602" xsd:string property_value: nif_annot:umls_ID "C0042219" xsd:string [Term] id: NIF_Subcellular:sao2254405550 name: Population namespace: birnlex_anatomy def: "A collection of independent organismal entities engaged in some form of spatio-temporal interaction or aggregate behavior" [] xref: SAO:sao2254405550 is_a: snap:ObjectAggregate property_value: dc:contributor "Bill Bug" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "A collection of independent organismal entities engaged in some form of spatio-temporal interaction or aggregate behavior" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Population" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao2254405550" xsd:string property_value: nif_obo_annot:createdDate "2006-09-07" xsd:string [Term] id: NIF_Subcellular:sao2409833926 name: Neurofibrillary Tangle namespace: birnlex_anatomy def: "Intracellular mass of paired, hellically wound protein filaments (PHF) lying in the cytoplasm of neuronal cell bodies and neuritic cell processes. They contain an abnormally phosporylated form of a microtuble associated with protein, tau." [] xref: SAO:sao2409833926 is_a: NIF_Subcellular:sao120573470 ! Cellular Inclusion property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Intracellular mass of paired, hellically wound protein filaments (PHF) lying in the cytoplasm of neuronal cell bodies and neuritic cell processes. They contain an abnormally phosporylated form of a microtuble associated with protein, tau." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Neurofibrillary Tangle" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao2409833926" xsd:string [Term] id: NIF_Subcellular:sao243541954 name: Synaptic Cleft namespace: birnlex_anatomy def: "The narrow gap that separates the presynaptic and postsynaptic membranes, into which a neurotransmitter is released (Gene Ontology)." [] xref: GO:0043083 xref: SAO:sao243541954 xref: UMLS:C0682685 is_a: NIF_Subcellular:sao1425028079 ! Extracellular Space property_value: http://www.w3.org/2004/02/skos/core#definition "The narrow gap that separates the presynaptic and postsynaptic membranes, into which a neurotransmitter is released (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/syn_cleft_2_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/syn_cleft_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Synaptic Cleft" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0043083" xsd:string property_value: nif_annot:sao_ID "sao243541954" xsd:string property_value: nif_annot:umls_ID "C0682685" xsd:string [Term] id: NIF_Subcellular:sao248349196 name: Neurotubule namespace: birnlex_anatomy def: "Refers to a microtubule found in a nerve cell. The term \"neurotubule\" may now be obselete; however, it was used in earlier findings." [] xref: SAO:sao248349196 is_a: NIF_Subcellular:sao1846835077 ! Microtubule disjoint_from: NIF_Subcellular:sao110773650 ! Dendritic Microtubule disjoint_from: NIF_Subcellular:sao1872343973 ! Microtubule Fascicle property_value: http://www.w3.org/2004/02/skos/core#definition "Refers to a microtubule found in a nerve cell. The term \"neurotubule\" may now be obselete; however, it was used in earlier findings." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Neurotubule" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao248349196" xsd:string [Term] id: NIF_Subcellular:sao250772229 name: Axolemma namespace: birnlex_anatomy def: "The plasma membrane of an axon; it is a specialized trilaminar random mosaic of protein molecules floating within a fluid matrix of highly mobile phospholipid molecules, 7-8 nm in thickness (Gene Ontology)." [] xref: GO:0030673 xref: SAO:sao250772229 is_a: NIF_Subcellular:sao1663586795 ! Plasma Membrane property_value: http://www.w3.org/2004/02/skos/core#definition "The plasma membrane of an axon; it is a specialized trilaminar random mosaic of protein molecules floating within a fluid matrix of highly mobile phospholipid molecules, 7-8 nm in thickness (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Axolemma" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0030673" xsd:string property_value: nif_annot:sao_ID "sao250772229" xsd:string [Term] id: NIF_Subcellular:sao254777664 name: Schmidtt-Lanterman Cleft namespace: birnlex_anatomy def: "From Reactime: Regions within compact myelin in which the cytoplasmic faces of the enveloping myelin sheath are not tightly juxtaposed, and include cytoplasm from the cell responsible for making the myelin. Schmidt-Lanterman clefts occur in the compact myelin internode, while lateral loops are analogous structures found in the paranodal region adjacent to the nodes of Ranvier." [] xref: SAO:sao254777664 is_a: NIF_Subcellular:sao1289190043 ! Cellular Space disjoint_from: NIF_Subcellular:sao-343550527 ! Mitochondrial Space disjoint_from: NIF_Subcellular:sao1547508851 ! Endosomal Lumen disjoint_from: NIF_Subcellular:sao1819509473 ! RER Lumen disjoint_from: NIF_Subcellular:sao1908934319 ! Intranuclear Membrane Space disjoint_from: NIF_Subcellular:sao1956231674 ! Golgi Lumen disjoint_from: NIF_Subcellular:sao797538226 ! Vesicle Lumen disjoint_from: NIF_Subcellular:sao927884761 ! SER Lumen property_value: http://www.w3.org/2004/02/skos/core#definition "From Reactime: Regions within compact myelin in which the cytoplasmic faces of the enveloping myelin sheath are not tightly juxtaposed, and include cytoplasm from the cell responsible for making the myelin. Schmidt-Lanterman clefts occur in the compact myelin internode, while lateral loops are analogous structures found in the paranodal region adjacent to the nodes of Ranvier." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/Schmidtt-Lanterman_cleft_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Schmidtt-Lanterman Cleft" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao254777664" xsd:string [Term] id: NIF_Subcellular:sao256000789 name: Initial Segment namespace: birnlex_anatomy def: "Portion of the axon proximal to the neuronal cell body, at the level of the axon hillock. The action potentials that propagate along the axon are generated at the level of this initial segment (Gene Ontology)." [] xref: GO:0043194 xref: SAO:sao256000789 is_a: NIF_Subcellular:sao280355188 ! Regional Part Of Axon disjoint_from: NIF_Subcellular:sao1470140754 ! Axon Collateral disjoint_from: NIF_Subcellular:sao1586851177 ! Regional Part Of Basket cell axon disjoint_from: NIF_Subcellular:sao1596975044 ! Main Axon disjoint_from: NIF_Subcellular:sao2007137787 ! Axon Terminal disjoint_from: NIF_Subcellular:sao203987954 ! Axonal Growth Cone disjoint_from: NIF_Subcellular:sao627227260 ! Axon Hillock property_value: http://www.w3.org/2004/02/skos/core#definition "Portion of the axon proximal to the neuronal cell body, at the level of the axon hillock. The action potentials that propagate along the axon are generated at the level of this initial segment (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/init_seg_2_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/init_seg_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Initial Segment" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0043194" xsd:string property_value: nif_annot:sao_ID "sao256000789" xsd:string [Term] id: NIF_Subcellular:sao257629430 name: Puncta Adhaerentia namespace: birnlex_anatomy def: "A small version of the zonula adharens type junction, characterized by a symmetrical adherent point between two cells." [] xref: SAO:sao257629430 is_a: NIF_Subcellular:sao1400623473 ! Zonula Adhaerens property_value: http://www.w3.org/2004/02/skos/core#definition "A small version of the zonula adharens type junction, characterized by a symmetrical adherent point between two cells." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/puncta_adherens_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Puncta Adhaerentia" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao257629430" xsd:string [Term] id: NIF_Subcellular:sao273773228 name: Apical Dendrite namespace: birnlex_anatomy xref: SAO:sao273773228 is_a: NIF_Subcellular:sao1211023249 ! Dendrite disjoint_from: NIF_Subcellular:sao1079900774 ! Basilar Dendrite property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Apical Dendrite" xsd:string property_value: nif_annot:bonfire_ID "BF_C000112" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao273773228" xsd:string [Term] id: NIF_Subcellular:sao280355188 name: Regional Part Of Axon namespace: birnlex_anatomy xref: SAO:sao280355188 is_a: NIF_Subcellular:sao-420949334 ! Regional Part Of Neuron Process disjoint_from: NIF_Subcellular:sao183270081 ! Subregional Part Of Neuron Process disjoint_from: NIF_Subcellular:sao420754792 ! Regional Part Of Dendrite property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of Axon" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao280355188" xsd:string [Term] id: NIF_Subcellular:sao28175134 name: Terminal Specialization namespace: birnlex_anatomy xref: SAO:sao28175134 is_a: NIF_Subcellular:sao420754792 ! Regional Part Of Dendrite disjoint_from: NIF_Subcellular:sao-1348591767 ! Branch Point Of Dendrite disjoint_from: NIF_Subcellular:sao1078172392 ! Trunk disjoint_from: NIF_Subcellular:sao884265541 ! Dendritic Branch property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Terminal Specialization" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao28175134" xsd:string [Term] id: NIF_Subcellular:sao289211478 name: Chemical Synapse namespace: birnlex_anatomy xref: SAO:sao289211478 is_a: NIF_Subcellular:sao914572699 ! Synapse disjoint_from: NIF_Subcellular:sao1311109124 ! Electrotonic Synapse disjoint_from: NIF_Subcellular:sao1506103497 ! Mixed Synapse property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Chemical Synapse" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao289211478" xsd:string [Term] id: NIF_Subcellular:sao295057932 name: Dendriole namespace: birnlex_anatomy xref: SAO:sao295057932 is_a: NIF_Subcellular:sao28175134 ! Terminal Specialization disjoint_from: NIF_Subcellular:sao1340260079 ! Tuft disjoint_from: NIF_Subcellular:sao1594955670 ! Dendritic Growth Cone property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Dendriole" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao295057932" xsd:string [Term] id: NIF_Subcellular:sao3089754107 name: RER Membrane namespace: birnlex_anatomy xref: SAO:sao3089754107 is_a: NIF_Subcellular:sao830981606 ! Intracellular Membrane property_value: http://www.w3.org/2004/02/skos/core#prefLabel "RER Membrane" xsd:string property_value: nif_annot:sao_ID "sao3089754107" xsd:string [Term] id: NIF_Subcellular:sao317384566 name: Stubby Dendritic Spine namespace: birnlex_anatomy xref: SAO:sao317384566 is_a: NIF_Subcellular:sao1799103720 ! Dendritic Spine disjoint_from: NIF_Subcellular:sao-876577163 ! Mushroom Dendritic Spine disjoint_from: NIF_Subcellular:sao-965204139 ! Branched Dendritic Spine disjoint_from: NIF_Subcellular:sao1232858786 ! Thin Dendritic Spine disjoint_from: NIF_Subcellular:sao1536532595 ! Sessile Dendritic Spine property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/stubby_dend_spine_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Stubby Dendritic Spine" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao317384566" xsd:string [Term] id: NIF_Subcellular:sao333328131 name: Cristae namespace: birnlex_anatomy def: "Any of the inward folds of the mitochondrial inner membrane. (Gene Ontology)" [] xref: GO:0030061 xref: SAO:sao333328131 xref: UMLS:C0230844 is_a: NIF_Subcellular:sao-1686050947 ! Regional Part Of Mitochondrial Membrane disjoint_from: NIF_Subcellular:sao1804523077 ! Mitochondrial Matrix property_value: http://www.w3.org/2004/02/skos/core#definition "Any of the inward folds of the mitochondrial inner membrane. (Gene Ontology)" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/cristae_ccdb_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Cristae" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0030061" xsd:string property_value: nif_annot:sao_ID "sao333328131" xsd:string property_value: nif_annot:umls_ID "C0230844" xsd:string [Term] id: NIF_Subcellular:sao340271629 name: Regional Part Of Cell namespace: birnlex_anatomy xref: SAO:sao340271629 is_a: NIF_Subcellular:nlx_subcell_100315 ! Subcellular entity disjoint_from: NIF_Subcellular:sao-1819020575 ! Regional Part Of Cell Component property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of Cell" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao340271629" xsd:string [Term] id: NIF_Subcellular:sao3826089237 name: Aggregate Object namespace: birnlex_anatomy xref: SAO:sao3826089237 is_a: snap:ObjectAggregate property_value: dc:contributor "Sarah Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Aggregate Object" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao3826089237" xsd:string [Term] id: NIF_Subcellular:sao386529203 name: Pre-synaptic Component namespace: birnlex_anatomy xref: SAO:sao386529203 is_a: NIF_Subcellular:sao1784069613 ! Synaptic Component disjoint_from: NIF_Subcellular:sao1507566336 ! Post-synaptic Component property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Pre-synaptic Component" xsd:string property_value: nif_annot:sao_ID "sao386529203" xsd:string [Term] id: NIF_Subcellular:sao388182739 name: Endfoot namespace: birnlex_anatomy def: "Terminal process of astrocyte abutting non-neuronal surfaces in the brain." [] xref: SAO:sao388182739 is_a: NIF_Subcellular:sao1189060993 ! Vellous Process property_value: http://www.w3.org/2004/02/skos/core#definition "Terminal process of astrocyte abutting non-neuronal surfaces in the brain." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Endfoot" xsd:string property_value: nif_annot:curationStatus "graph position temporary" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao388182739" xsd:string [Term] id: NIF_Subcellular:sao401910342 name: Somatic Portion namespace: birnlex_anatomy def: "Portion of the tanycyte that lies within the ependyma and contains the nucleus (Peters, Palay and Webster, 1991)." [] xref: SAO:sao401910342 is_a: NIF_Subcellular:sao877341397 ! Regional Part Of Tanycyte disjoint_from: NIF_Subcellular:sao1447478620 ! Pial Endfoot disjoint_from: NIF_Subcellular:sao1749953771 ! Tail Portion disjoint_from: NIF_Subcellular:sao2064469343 ! Vascular Endfoot property_value: http://www.w3.org/2004/02/skos/core#definition "Portion of the tanycyte that lies within the ependyma and contains the nucleus (Peters, Palay and Webster, 1991)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Somatic Portion" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao401910342" xsd:string [Term] id: NIF_Subcellular:sao403156667 name: Docked Vesicle namespace: birnlex_anatomy def: "Synaptic vesicle docked at the pre-synaptic active zone." [] xref: SAO:sao403156667 is_a: NIF_Subcellular:sao577473346 ! Vesicle Other disjoint_from: NIF_Subcellular:sao1531915298 ! Amorphous Vesicle property_value: http://www.w3.org/2004/02/skos/core#definition "Synaptic vesicle docked at the pre-synaptic active zone." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Docked Vesicle" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao403156667" xsd:string [Term] id: NIF_Subcellular:sao4040591221 name: Cortical Lewy Body namespace: birnlex_anatomy def: "Lesion that is less well defined than a Classical Lewy Body and lacks a halo." [] xref: SAO:sao4040591221 is_a: NIF_Subcellular:sao4933778419 ! Lewy Body property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Lesion that is less well defined than a Classical Lewy Body and lacks a halo." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Cortical Lewy Body" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao4040591221" xsd:string [Term] id: NIF_Subcellular:sao413722576 name: Peri Cellular Basket namespace: birnlex_anatomy def: "Ramification of basket cell axon surrounding cell bodies, forming the characteristic peri-cellular baskets from which the cell class derives its name." [] xref: SAO:sao413722576 is_a: NIF_Subcellular:sao1586851177 ! Regional Part Of Basket cell axon disjoint_from: NIF_Subcellular:sao109906988 ! Pinceau Fiber property_value: http://www.w3.org/2004/02/skos/core#definition "Ramification of basket cell axon surrounding cell bodies, forming the characteristic peri-cellular baskets from which the cell class derives its name." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Peri Cellular Basket" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao413722576" xsd:string [Term] id: NIF_Subcellular:sao414196390 name: Membrane Bound Organelle namespace: birnlex_anatomy def: "Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane (Gene Ontology)." [] xref: GO:0043227 xref: SAO:sao414196390 is_a: NIF_Subcellular:sao1539965131 ! Organelle disjoint_from: NIF_Subcellular:sao1456184038 ! Non Membrane Bound Organelle property_value: http://www.w3.org/2004/02/skos/core#definition "Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Membrane Bound Organelle" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0043227" xsd:string property_value: nif_annot:sao_ID "sao414196390" xsd:string [Term] id: NIF_Subcellular:sao420754792 name: Regional Part Of Dendrite namespace: birnlex_anatomy xref: SAO:sao420754792 is_a: NIF_Subcellular:sao-420949334 ! Regional Part Of Neuron Process disjoint_from: NIF_Subcellular:sao183270081 ! Subregional Part Of Neuron Process disjoint_from: NIF_Subcellular:sao280355188 ! Regional Part Of Axon property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of Dendrite" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao420754792" xsd:string [Term] id: NIF_Subcellular:sao427941916 name: Septate Junction namespace: birnlex_anatomy def: "An intercellular junction found in invertebrate epithelia that is characterised by a ladder like appearance in electron micrographs. Thought to provide structural strength and to provide a barrier to diffusion of solutes through the intercellular space. Occur widely in transporting epithelia and are controversially considered analogous to tight junctions (zonula occludens) Biology-online.org" [] xref: GO:0005918 xref: SAO:sao427941916 is_a: NIF_Subcellular:sao1922892319 ! Intercellular Junction Site disjoint_from: NIF_Subcellular:sao-946766835 ! Synaptic Site disjoint_from: NIF_Subcellular:sao118541872 ! Gap Junction disjoint_from: NIF_Subcellular:sao1400623473 ! Zonula Adhaerens disjoint_from: NIF_Subcellular:sao1939999134 ! Zonula Occludens disjoint_from: NIF_Subcellular:sao1956738165 ! Macular Adhaerentia property_value: http://www.w3.org/2004/02/skos/core#definition "An intercellular junction found in invertebrate epithelia that is characterised by a ladder like appearance in electron micrographs. Thought to provide structural strength and to provide a barrier to diffusion of solutes through the intercellular space. Occur widely in transporting epithelia and are controversially considered analogous to tight junctions (zonula occludens) Biology-online.org" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Septate Junction" xsd:string property_value: nif_annot:curationStatus "graph position temporary" xsd:string property_value: nif_annot:gene_Ontology_ID "0005918" xsd:string property_value: nif_annot:sao_ID "sao427941916" xsd:string [Term] id: NIF_Subcellular:sao445019788 name: Connexon namespace: birnlex_anatomy def: "Assembly of 6 connexins into a hemichannel that forms one half of a gap junction. In some cells, the hemichannel is active as a conduit between the cytoplasm and the extracellular space." [] synonym: "hemichannel, connexon complex" EXACT [] xref: GO:0005922 xref: SAO:sao445019788 xref: UMLS:C0230609 is_a: NIF_Subcellular:nlx_subcell_100315 ! Subcellular entity disjoint_from: NIF_Subcellular:sao1038025871 ! Polyribosome disjoint_from: NIF_Subcellular:sao1747012216 ! Orthogonal Array property_value: http://www.w3.org/2004/02/skos/core#definition "Assembly of 6 connexins into a hemichannel that forms one half of a gap junction. In some cells, the hemichannel is active as a conduit between the cytoplasm and the extracellular space." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Connexon" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005922" xsd:string property_value: nif_annot:sao_ID "sao445019788" xsd:string property_value: nif_annot:umls_ID "C0230609" xsd:string property_value: nif_obo_annot:definitionSource "Wikipedia" xsd:string property_value: nif_obo_annot:synonym "hemichannel, connexon complex" xsd:string [Term] id: NIF_Subcellular:sao445485807 name: Extended Chromatin namespace: birnlex_anatomy def: "A dispersed and relatively uncompacted form of chromatin (Gene Ontology)." [] synonym: "euchromatin" EXACT [] xref: GO:0000791 xref: SAO:sao445485807 is_a: NIF_Subcellular:sao1615953555 ! Chromatin disjoint_from: NIF_Subcellular:sao581845896 ! Condensed Chromatin property_value: http://www.w3.org/2004/02/skos/core#definition "A dispersed and relatively uncompacted form of chromatin (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Extended Chromatin" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0000791" xsd:string property_value: nif_annot:sao_ID "sao445485807" xsd:string property_value: nif_obo_annot:synonym "euchromatin" xsd:string [Term] id: NIF_Subcellular:sao447856407 name: Contact Site namespace: birnlex_anatomy def: "Sites of close apposition of the inner and outer mitochondrial membrane (Perkins and Frey, 2000)." [] xref: SAO:sao447856407 is_a: NIF_Subcellular:sao-1367457321 ! Mitochondrial Site property_value: http://www.w3.org/2004/02/skos/core#definition "Sites of close apposition of the inner and outer mitochondrial membrane (Perkins and Frey, 2000)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Contact Site" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao447856407" xsd:string [Term] id: NIF_Subcellular:sao451912436 name: Golgi Apparatus namespace: birnlex_anatomy def: "A stack of flattened vesicles that functions in posttranslational processing and sorting of proteins, receiving them from the RER and directing them to secretory vesicles, lysosomes, or the cell membrane. The movement of proteins takes place by transfer vesicles that bud off from the rough endoplasmic reticulum or Golgi apparatus and fuse with the Golgi, lysosomes or cell membrane. (From Glick, Glossary of Biochemistry and Molecular Biology, 1990) (MSH)" [] synonym: "golgi cisternae" EXACT [] xref: GO:0005794 xref: SAO:sao451912436 xref: UMLS:C0018042 is_a: NIF_Subcellular:sao414196390 ! Membrane Bound Organelle disjoint_from: NIF_Subcellular:sao1036339110 ! Endoplasmic Reticulum disjoint_from: NIF_Subcellular:sao1702920020 ! Nucleus disjoint_from: NIF_Subcellular:sao1720343330 ! Endosome disjoint_from: NIF_Subcellular:sao1860313010 ! Mitochondrion disjoint_from: NIF_Subcellular:sao2045955158 ! Multivesicular Body disjoint_from: NIF_Subcellular:sao499555322 ! Peroxisome disjoint_from: NIF_Subcellular:sao585356902 ! Lysosome disjoint_from: NIF_Subcellular:sao725931194 ! Spine Apparatus property_value: http://www.w3.org/2004/02/skos/core#definition "A stack of flattened vesicles that functions in posttranslational processing and sorting of proteins, receiving them from the RER and directing them to secretory vesicles, lysosomes, or the cell membrane. The movement of proteins takes place by transfer vesicles that bud off from the rough endoplasmic reticulum or Golgi apparatus and fuse with the Golgi, lysosomes or cell membrane. (From Glick, Glossary of Biochemistry and Molecular Biology, 1990) (MSH)" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/golgi_app_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Golgi Apparatus" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005794" xsd:string property_value: nif_annot:sao_ID "sao451912436" xsd:string property_value: nif_annot:umls_ID "C0018042" xsd:string property_value: nif_obo_annot:synonym "golgi cisternae" xsd:string [Term] id: NIF_Subcellular:sao452970150 name: Membrane Receptor namespace: birnlex_anatomy is_a: NIF_Molecule:sao26622963 property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Membrane Receptor" xsd:string property_value: nif_obo_annot:externalSourceURI "umls_ID: C0230664" xsd:string [Term] id: NIF_Subcellular:sao4749542545 name: Classical Lewy Body namespace: birnlex_anatomy def: "Eosinophilic cytoplasmic lesion, 5 to 15 micrometers in diameter, with a dense eosinphilic core surrounded by a halo of 10 to 20 nm wide radially oriented alpha-synuclein fibrils." [] xref: SAO:sao4749542545 is_a: NIF_Subcellular:sao4933778419 ! Lewy Body property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Eosinophilic cytoplasmic lesion, 5 to 15 micrometers in diameter, with a dense eosinphilic core surrounded by a halo of 10 to 20 nm wide radially oriented alpha-synuclein fibrils." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Classical Lewy Body" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao4749542545" xsd:string [Term] id: NIF_Subcellular:sao478230652 name: Granular Vesicle namespace: birnlex_anatomy def: "Vesicle of varying size, but usually larger than 45 nm, that has an electron dense \"granular\" core, associated with noradrenergic and peptidergic cells." [] xref: SAO:sao478230652 is_a: NIF_Subcellular:sao180601769 ! Cytoplasmic Vesicle disjoint_from: NIF_Subcellular:sao1071221672 ! Synaptic Vesicle disjoint_from: NIF_Subcellular:sao1362520468 ! Endocytic Vesicle disjoint_from: NIF_Subcellular:sao577473346 ! Vesicle Other disjoint_from: NIF_Subcellular:sao885490876 ! Transport Vesicle property_value: http://www.w3.org/2004/02/skos/core#definition "Vesicle of varying size, but usually larger than 45 nm, that has an electron dense \"granular\" core, associated with noradrenergic and peptidergic cells." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Granular Vesicle" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao478230652" xsd:string [Term] id: NIF_Subcellular:sao4785563283 name: Amyloid Aggregate namespace: birnlex_anatomy def: "Insoluble fibrous protein aggregation sharing specific structural traits." [] xref: SAO:sao4785563283 is_a: NIF_Subcellular:sao7016027781 ! Protein Aggregate property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Insoluble fibrous protein aggregation sharing specific structural traits." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Amyloid Aggregate" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao4785563283" xsd:string [Term] id: NIF_Subcellular:sao488120195 name: Calyx namespace: birnlex_anatomy xref: SAO:sao488120195 is_a: NIF_Subcellular:sao2007137787 ! Axon Terminal disjoint_from: NIF_Subcellular:sao187426937 ! Synaptic Bouton property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Calyx" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao488120195" xsd:string [Term] id: NIF_Subcellular:sao4933778419 name: Lewy Body namespace: birnlex_anatomy def: "Neuronal inclusion commonly found in damaged neurons. A spherical mass that dispaces other cells composed of abnormally phosphorylated, neurofilament proteins aggregated with ubiquitin and alpha-synuclein. They are intracytoplasmic." [] xref: SAO:sao4933778419 is_a: NIF_Subcellular:sao120573470 ! Cellular Inclusion property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Neuronal inclusion commonly found in damaged neurons. A spherical mass that dispaces other cells composed of abnormally phosphorylated, neurofilament proteins aggregated with ubiquitin and alpha-synuclein. They are intracytoplasmic." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Lewy Body" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao4933778419" xsd:string property_value: nif_obo_annot:note "there are two morphological types: classical (brain stem) and cortical Lewy bodies" xsd:string [Term] id: NIF_Subcellular:sao494258938 name: Active Zone Dense Projection namespace: birnlex_anatomy def: "Electron dense projection extending from the cytomatrix into the cytoplasm on which synaptic vesicles are tethered (Zhai and Bellen, 2004)." [] xref: SAO:sao494258938 is_a: NIF_Subcellular:sao1911631652 ! Pre-synaptic Active Zone Component disjoint_from: NIF_Subcellular:sao1470121605 ! Active Zone Cytomatrix disjoint_from: NIF_Subcellular:sao1730664005 ! Pre-synaptic Grid disjoint_from: NIF_Subcellular:sao2038461087 ! Active Zone Plasma Membrane property_value: http://www.w3.org/2004/02/skos/core#definition "Electron dense projection extending from the cytomatrix into the cytoplasm on which synaptic vesicles are tethered (Zhai and Bellen, 2004)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Active Zone Dense Projection" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao494258938" xsd:string [Term] id: NIF_Subcellular:sao499555322 name: Peroxisome namespace: birnlex_anatomy def: "Resembles lysosomes in appearance (Peters, Palay and Webster, 1991). According to the latter, peroxisome is synonymous with microbodies." [] xref: GO:0005777 xref: SAO:sao499555322 xref: UMLS:C0752063 is_a: NIF_Subcellular:sao414196390 ! Membrane Bound Organelle disjoint_from: NIF_Subcellular:sao1036339110 ! Endoplasmic Reticulum disjoint_from: NIF_Subcellular:sao1702920020 ! Nucleus disjoint_from: NIF_Subcellular:sao1720343330 ! Endosome disjoint_from: NIF_Subcellular:sao1860313010 ! Mitochondrion disjoint_from: NIF_Subcellular:sao2045955158 ! Multivesicular Body disjoint_from: NIF_Subcellular:sao451912436 ! Golgi Apparatus disjoint_from: NIF_Subcellular:sao585356902 ! Lysosome disjoint_from: NIF_Subcellular:sao725931194 ! Spine Apparatus property_value: http://www.w3.org/2004/02/skos/core#definition "A small, membrane-bounded organelle that uses dioxygen (O2) to oxidize organic molecules; contains some enzymes that produce and others that degrade hydrogen peroxide (H2O2) (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Resembles lysosomes in appearance (Peters, Palay and Webster, 1991). According to the latter, peroxisome is synonymous with microbodies." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Peroxisome" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005777" xsd:string property_value: nif_annot:sao_ID "sao499555322" xsd:string property_value: nif_annot:umls_ID "C0752063" xsd:string [Term] id: NIF_Subcellular:sao505137457 name: Nuclear Body namespace: birnlex_anatomy def: "Extra-nucleolar nuclear domains usually visualized by confocal microscopy and fluorescent antibodies to specific proteins (Gene Ontology)." [] xref: GO:0016604 xref: SAO:sao505137457 xref: UMLS:C0230595 is_a: NIF_Subcellular:sao1499850686 ! Nuclear Subcomponent disjoint_from: NIF_Subcellular:sao1049471211 ! Interchromatin Granule disjoint_from: NIF_Subcellular:sao1455996588 ! Nuclear Lamina disjoint_from: NIF_Subcellular:sao1571698684 ! Barr Body disjoint_from: NIF_Subcellular:sao1615953555 ! Chromatin disjoint_from: NIF_Subcellular:sao1687101204 ! Nuclear Membrane disjoint_from: NIF_Subcellular:sao1820400233 ! Nucleolus disjoint_from: NIF_Subcellular:sao220861693 ! Nuclear Pore disjoint_from: NIF_Subcellular:sao661522542 ! Nucleoplasm property_value: http://www.w3.org/2004/02/skos/core#definition "Extra-nucleolar nuclear domains usually visualized by confocal microscopy and fluorescent antibodies to specific proteins (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Nuclear Body" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0016604" xsd:string property_value: nif_annot:sao_ID "sao505137457" xsd:string property_value: nif_annot:umls_ID "C0230595" xsd:string [Term] id: NIF_Subcellular:sao5051906853 name: Fibril namespace: birnlex_anatomy def: "A minute fibril or filament." [] xref: SAO:sao5051906853 is_a: NIF_Subcellular:sao7561423738 ! Filament property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "A minute fibril or filament." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Fibril" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao5051906853" xsd:string [Term] id: NIF_Subcellular:sao506721981 name: Laminated Body namespace: birnlex_anatomy xref: SAO:sao506721981 is_a: NIF_Subcellular:sao120573470 ! Cellular Inclusion property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Laminated Body" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao506721981" xsd:string [Term] id: NIF_Subcellular:sao508165343 name: Supra Cellular Structure namespace: birnlex_anatomy def: "A morphological or functional domain formed by parts of two or more cells, e.g., neuropil, dendritic bundles." [] synonym: "Supracellular Structure" EXACT [] xref: SAO:sao508165343 is_a: NIF_Subcellular:nlx_subcell_100315 ! Subcellular entity disjoint_from: NIF_Subcellular:sao1970895398 ! Cell Regional Part Aggregate Object disjoint_from: NIF_Subcellular:sao991156472 ! Cell Component Aggregate Object ! obsolete property_value: http://www.w3.org/2004/02/skos/core#definition "A morphological or functional domain formed by parts of two or more cells, e.g., neuropil, dendritic bundles." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Supra Cellular Structure" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao508165343" xsd:string property_value: nif_obo_annot:synonym "Supracellular Structure" xsd:string [Term] id: NIF_Subcellular:sao508958414 name: Intracristal Space namespace: birnlex_anatomy def: "The space bounded by the cristae membrane" [] xref: SAO:sao508958414 is_a: NIF_Subcellular:sao-343550527 ! Mitochondrial Space disjoint_from: NIF_Subcellular:sao-1899375636 ! Mitochondrial Lumen disjoint_from: NIF_Subcellular:sao118944228 ! Mitochondrial Intermembrane Space property_value: http://protege.stanford.edu/plugins/owl/protege#subclassesDisjoint "true" xsd:boolean property_value: http://www.w3.org/2004/02/skos/core#definition "The space bounded by the cristae membrane" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Intracristal Space" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao508958414" xsd:string [Term] id: NIF_Subcellular:sao517367952 name: Endocytic Zone namespace: birnlex_anatomy def: "Region of the spine within several hundred nanometers of the post synaptic specialization characterized by the presence of coated pits. It is believed that this zone may be specialized for endocytosis. These coated pits are never observed in membrane associated with the post synaptic specialization (Blanpied and Ehlers, 2004)." [] xref: SAO:sao517367952 is_a: NIF_Subcellular:sao553711217 ! Spine Related Site property_value: http://www.w3.org/2004/02/skos/core#definition "Region of the spine within several hundred nanometers of the post synaptic specialization characterized by the presence of coated pits. It is believed that this zone may be specialized for endocytosis. These coated pits are never observed in membrane associated with the post synaptic specialization (Blanpied and Ehlers, 2004)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Endocytic Zone" xsd:string property_value: nif_annot:sao_ID "sao517367952" xsd:string [Term] id: NIF_Subcellular:sao553711217 name: Spine Related Site namespace: birnlex_anatomy xref: SAO:sao553711217 is_a: snap:Site disjoint_from: NIF_Subcellular:sao-1367457321 ! Mitochondrial Site disjoint_from: NIF_Subcellular:sao-596411490 ! Node Related Site disjoint_from: NIF_Subcellular:sao1049717962 ! Regional Part Of Neuronal Cell Body disjoint_from: NIF_Subcellular:sao1186862860 ! Basal Pole Of Neuron disjoint_from: NIF_Subcellular:sao1289190043 ! Cellular Space disjoint_from: NIF_Subcellular:sao1299635018 ! Cell Cell Contact Zone disjoint_from: NIF_Subcellular:sao1425028079 ! Extracellular Space disjoint_from: NIF_Subcellular:sao1579007712 ! Cell Interior disjoint_from: NIF_Subcellular:sao1877927224 ! Apical Pole Of Neuron disjoint_from: NIF_Subcellular:sao1922892319 ! Intercellular Junction Site property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Spine Related Site" xsd:string property_value: nif_annot:sao_ID "sao553711217" xsd:string [Term] id: NIF_Subcellular:sao553737851 name: Spinule namespace: birnlex_anatomy xref: SAO:sao553737851 is_a: NIF_Subcellular:sao866168499 ! Regional Part Of Spine disjoint_from: NIF_Subcellular:sao1642908940 ! Spine Neck disjoint_from: NIF_Subcellular:sao952643730 ! Spine Head property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/spinule_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Spinule" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao553737851" xsd:string [Term] id: NIF_Subcellular:sao561419532 name: Golgi Lamellae namespace: birnlex_anatomy xref: SAO:sao561419532 is_a: NIF_Subcellular:sao624292949 ! Golgi Subcomponent disjoint_from: NIF_Subcellular:sao819927218 ! Golgi-associated Vesicle property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Golgi Lamellae" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao561419532" xsd:string [Term] id: NIF_Subcellular:sao571652273 name: Node Of Ranvier namespace: birnlex_anatomy def: "Site located at the gaps in the myelin sheaths of myelinated axons. Axon diameter is generally decreased in the nodal region, compared to the internode. Ranvier's nodes allow saltatory conduction, that is, jumping of impulses from node to node, which is faster and more energetically favorable than continuous conduction (MSH)." [] is_obsolete: true replaced_by: NIF_Subcellular:birnlex_1152_2 ! Node of Ranvier xref: SAO:sao571652273 xref: UMLS:C0034667 property_value: http://www.w3.org/2004/02/skos/core#definition "Site located at the gaps in the myelin sheaths of myelinated axons. Axon diameter is generally decreased in the nodal region, compared to the internode. Ranvier's nodes allow saltatory conduction, that is, jumping of impulses from node to node, which is faster and more energetically favorable than continuous conduction (MSH)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Node Of Ranvier" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:isReplacedByClass "NIF_Subcellular:birnlex_1152_2" xsd:string property_value: nif_annot:sao_ID "sao571652273" xsd:string property_value: nif_annot:umls_ID "C0034667" xsd:string property_value: nif_obo_annot:modifiedDate "May 16, 2009" xsd:string [Term] id: NIF_Subcellular:sao5764355747 name: Corona namespace: birnlex_anatomy def: "The periphery of the Lewy Body. In Parkinson's Disease, it contains sperical accumulations of filaments arrange in a loose, radiating array." [] synonym: "Halo" EXACT [] xref: SAO:sao5764355747 is_a: NIF_Subcellular:sao1894609662 ! Regional Part Of Lewy Body property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "The periphery of the Lewy Body. In Parkinson's Disease, it contains sperical accumulations of filaments arrange in a loose, radiating array." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Corona" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao5764355747" xsd:string property_value: nif_obo_annot:synonym "Halo" xsd:string [Term] id: NIF_Subcellular:sao577473346 name: Vesicle Other namespace: birnlex_anatomy def: "Category for vesicles observed in electron micrographs with unknown function." [] xref: SAO:sao577473346 is_a: NIF_Subcellular:sao180601769 ! Cytoplasmic Vesicle disjoint_from: NIF_Subcellular:sao1071221672 ! Synaptic Vesicle disjoint_from: NIF_Subcellular:sao1362520468 ! Endocytic Vesicle disjoint_from: NIF_Subcellular:sao478230652 ! Granular Vesicle disjoint_from: NIF_Subcellular:sao885490876 ! Transport Vesicle property_value: http://www.w3.org/2004/02/skos/core#definition "Category for vesicles observed in electron micrographs with unknown function." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Vesicle Other" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao577473346" xsd:string [Term] id: NIF_Subcellular:sao581845896 name: Condensed Chromatin namespace: birnlex_anatomy def: "Chromatin that are agglomerated into irregular masses, some attached to the nuclear envelope." [] synonym: "heterochromatin" EXACT [] xref: GO:0000792 xref: SAO:sao581845896 is_a: NIF_Subcellular:sao1615953555 ! Chromatin disjoint_from: NIF_Subcellular:sao445485807 ! Extended Chromatin property_value: http://www.w3.org/2004/02/skos/core#definition "A compact and highly condensed form of chromatin (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Chromatin that are agglomerated into irregular masses, some attached to the nuclear envelope." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Condensed Chromatin" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0000792" xsd:string property_value: nif_annot:sao_ID "sao581845896" xsd:string property_value: nif_obo_annot:synonym "heterochromatin" xsd:string [Term] id: NIF_Subcellular:sao585356902 name: Lysosome namespace: birnlex_anatomy def: "Any of a group of related cytoplasmic, membrane bound organelles that are found in most animal cells and that contain a variety of hydrolases, most of which have their maximal activities in the pH range 5-6. The contained enzymes display latency if properly isolated. About 40 different lysosomal hydrolases are known and lysosomes have a great variety of morphologies and functions (Gene Ontology)." [] xref: GO:0005764 xref: SAO:sao585356902 xref: UMLS:C0024369 is_a: NIF_Subcellular:sao414196390 ! Membrane Bound Organelle disjoint_from: NIF_Subcellular:sao1036339110 ! Endoplasmic Reticulum disjoint_from: NIF_Subcellular:sao1702920020 ! Nucleus disjoint_from: NIF_Subcellular:sao1720343330 ! Endosome disjoint_from: NIF_Subcellular:sao1860313010 ! Mitochondrion disjoint_from: NIF_Subcellular:sao2045955158 ! Multivesicular Body disjoint_from: NIF_Subcellular:sao451912436 ! Golgi Apparatus disjoint_from: NIF_Subcellular:sao499555322 ! Peroxisome disjoint_from: NIF_Subcellular:sao725931194 ! Spine Apparatus property_value: http://www.w3.org/2004/02/skos/core#definition "Any of a group of related cytoplasmic, membrane bound organelles that are found in most animal cells and that contain a variety of hydrolases, most of which have their maximal activities in the pH range 5-6. The contained enzymes display latency if properly isolated. About 40 different lysosomal hydrolases are known and lysosomes have a great variety of morphologies and functions (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Lysosome" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005764" xsd:string property_value: nif_annot:sao_ID "sao585356902" xsd:string property_value: nif_annot:umls_ID "C0024369" xsd:string [Term] id: NIF_Subcellular:sao587592318 name: Neurotransmitter receptor role namespace: birnlex_anatomy def: "Cell surface receptors that bind signalling molecules released by neurons and convert these signals into intracellular changes influencing the behavior of cells. Neurotransmitter is used here in its most general sense, including not only messengers that act to regulate ion channels, but also those which act on second messenger systems and those which may act at a distance from their release sites. Included are receptors for neuromodulators, neuroregulators, neuromediators, and neurohumors, whether or not located at synapses (MSH)." [] xref: SAO:sao587592318 xref: UMLS:C0034828 disjoint_from: NIF_Molecule:sao1246280606 disjoint_from: NIF_Subcellular:sao1048004962 ! Tyrosine Kinase Receptor property_value: http://www.w3.org/2004/02/skos/core#definition "Cell surface receptors that bind signalling molecules released by neurons and convert these signals into intracellular changes influencing the behavior of cells. Neurotransmitter is used here in its most general sense, including not only messengers that act to regulate ion channels, but also those which act on second messenger systems and those which may act at a distance from their release sites. Included are receptors for neuromodulators, neuroregulators, neuromediators, and neurohumors, whether or not located at synapses (MSH)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Neurotransmitter Receptor Role" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao587592318" xsd:string property_value: nif_annot:umls_ID "C0034828" xsd:string [Term] id: NIF_Subcellular:sao587858733 name: Glomerulus namespace: birnlex_anatomy def: "Large synaptic bouton found in areas like olfactory bulb, cerebellar cortex and thalamus, that contacts many post-synaptic targets. http://ccdb.ucsd.edu/SAO/images/glomerulus_sw_512x512.jpg" [] xref: SAO:sao587858733 is_a: NIF_Subcellular:sao205380252 ! Neuropil property_value: http://www.w3.org/2004/02/skos/core#definition "Large synaptic bouton found in areas like olfactory bulb, cerebellar cortex and thalamus, that contacts many post-synaptic targets. http://ccdb.ucsd.edu/SAO/images/glomerulus_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Type of neuropil characterized by a large synaptic bouton that contacts many post-synaptic targets found in areas like olfactory bulb, cerebellar cortex and thalamus." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Glomerulus" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao587858733" xsd:string property_value: nif_obo_annot:modifiedDate "June 22, 2009" xsd:string [Term] id: NIF_Subcellular:sao601362597 name: Lewy Neurite namespace: birnlex_anatomy def: "Elongated neuronal process, described in brains of patients with Parkinson's disease, many of which exhibit side branches and have more than one branching point. Stains positively for ubiquitin in brainstem and forebrain regions affected in Parkinson's disease." [] xref: SAO:sao601362597 is_a: NIF_Subcellular:sao-867568886 ! Neuron Process property_value: http://www.w3.org/2004/02/skos/core#definition "Elongated neuronal process, described in brains of patients with Parkinson's disease, many of which exhibit side branches and have more than one branching point. Stains positively for ubiquitin in brainstem and forebrain regions affected in Parkinson's disease." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Lewy Neurite" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao601362597" xsd:string [Term] id: NIF_Subcellular:sao624292949 name: Golgi Subcomponent namespace: birnlex_anatomy xref: SAO:sao624292949 is_a: NIF_Subcellular:sao628508602 ! Cellular Subcomponent property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Golgi Subcomponent" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao624292949" xsd:string [Term] id: NIF_Subcellular:sao627227260 name: Axon Hillock namespace: birnlex_anatomy def: "Cone shaped elevation from which the axon originates; in Nissl stained preparations, the axon hillock usually can be identified as a region of the perikaryon that is distinguished by a deficiency of Nissl substance (Peters, Palay and Webster, 1991)." [] xref: GO:0043203 xref: SAO:sao627227260 xref: UMLS:C0228079 is_a: NIF_Subcellular:sao280355188 ! Regional Part Of Axon disjoint_from: NIF_Subcellular:sao1470140754 ! Axon Collateral disjoint_from: NIF_Subcellular:sao1586851177 ! Regional Part Of Basket cell axon disjoint_from: NIF_Subcellular:sao1596975044 ! Main Axon disjoint_from: NIF_Subcellular:sao2007137787 ! Axon Terminal disjoint_from: NIF_Subcellular:sao203987954 ! Axonal Growth Cone disjoint_from: NIF_Subcellular:sao256000789 ! Initial Segment property_value: http://www.w3.org/2004/02/skos/core#definition "Cone shaped elevation from which the axon originates; in Nissl stained preparations, the axon hillock usually can be identified as a region of the perikaryon that is distinguished by a deficiency of Nissl substance (Peters, Palay and Webster, 1991)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Axon Hillock" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0043203" xsd:string property_value: nif_annot:sao_ID "sao627227260" xsd:string property_value: nif_annot:umls_ID "C0228079" xsd:string [Term] id: NIF_Subcellular:sao628508602 name: Cellular Subcomponent namespace: birnlex_anatomy xref: SAO:sao628508602 is_a: NIF_Subcellular:sao-1337158144 ! Cellular Component disjoint_from: NIF_Subcellular:sao101633890 ! Cytosol disjoint_from: NIF_Subcellular:sao1081228141 ! Glycogen Granule disjoint_from: NIF_Subcellular:sao11978067 ! Basal Body disjoint_from: NIF_Subcellular:sao120573470 ! Cellular Inclusion disjoint_from: NIF_Subcellular:sao1397492660 ! Basal Lamina disjoint_from: NIF_Subcellular:sao1539965131 ! Organelle disjoint_from: NIF_Subcellular:sao1635329413 ! Cytoskeletal Element disjoint_from: NIF_Subcellular:sao1663586795 ! Plasma Membrane disjoint_from: NIF_Subcellular:sao1784069613 ! Synaptic Component disjoint_from: NIF_Subcellular:sao1938587839 ! Subplasmalemmal Coating disjoint_from: NIF_Subcellular:sao1969557946 ! Coated Pit disjoint_from: NIF_Subcellular:sao221389602 ! Vesicle disjoint_from: NIF_Subcellular:sao730872736 ! Dense Body disjoint_from: NIF_Subcellular:sao787716553 ! Cilium disjoint_from: NIF_Subcellular:sao830981606 ! Intracellular Membrane property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Cellular Subcomponent" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao628508602" xsd:string [Term] id: NIF_Subcellular:sao632188024 name: Cis Face namespace: birnlex_anatomy xref: SAO:sao632188024 is_a: NIF_Subcellular:sao1546288504 ! Regional Part Of Golgi disjoint_from: NIF_Subcellular:sao1039242387 ! Trans Face disjoint_from: NIF_Subcellular:sao138219748 ! Vesicular Component disjoint_from: NIF_Subcellular:sao9456487 ! Trans Golgi Network property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Cis Face" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao632188024" xsd:string [Term] id: NIF_Subcellular:sao6433132645 name: Cellular Membrane namespace: birnlex_anatomy xref: SAO:sao6433132645 is_a: NIF_Subcellular:sao-1337158144 ! Cellular Component property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Cellular Membrane" xsd:string property_value: nif_annot:sao_ID "sao6433132645" xsd:string [Term] id: NIF_Subcellular:sao6587439252 name: Core namespace: birnlex_anatomy def: "The center portion of the Lewy Body. In Parkinson's Disease, it contains a matted meshwork of filaments." [] xref: SAO:sao6587439252 is_a: NIF_Subcellular:sao1894609662 ! Regional Part Of Lewy Body property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "The center portion of the Lewy Body. In Parkinson's Disease, it contains a matted meshwork of filaments." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Core" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao6587439252" xsd:string [Term] id: NIF_Subcellular:sao6603990120 name: Paired Helical Filament namespace: birnlex_anatomy def: "Two threads of tau protein that are wound around each other." [] synonym: "PHF" EXACT [] xref: SAO:sao6603990120 is_a: NIF_Subcellular:sao7561423738 ! Filament property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Two threads of tau protein that are wound around each other." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Paired Helical Filament" xsd:string property_value: nif_annot:sao_ID "sao6603990120" xsd:string property_value: nif_obo_annot:synonym "PHF" xsd:string [Term] id: NIF_Subcellular:sao661522542 name: Nucleoplasm namespace: birnlex_anatomy def: "That part of the nuclear content other than the chromosomes or the nucleolus (Gene Ontology)." [] xref: GO:0005654 xref: SAO:sao661522542 xref: UMLS:C0682537 is_a: NIF_Subcellular:sao1499850686 ! Nuclear Subcomponent disjoint_from: NIF_Subcellular:sao1049471211 ! Interchromatin Granule disjoint_from: NIF_Subcellular:sao1455996588 ! Nuclear Lamina disjoint_from: NIF_Subcellular:sao1571698684 ! Barr Body disjoint_from: NIF_Subcellular:sao1615953555 ! Chromatin disjoint_from: NIF_Subcellular:sao1687101204 ! Nuclear Membrane disjoint_from: NIF_Subcellular:sao1820400233 ! Nucleolus disjoint_from: NIF_Subcellular:sao220861693 ! Nuclear Pore disjoint_from: NIF_Subcellular:sao505137457 ! Nuclear Body property_value: http://www.w3.org/2004/02/skos/core#definition "That part of the nuclear content other than the chromosomes or the nucleolus (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Nucleoplasm" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005654" xsd:string property_value: nif_annot:sao_ID "sao661522542" xsd:string property_value: nif_annot:umls_ID "C0682537" xsd:string [Term] id: NIF_Subcellular:sao666410040 name: Mitochondrial Subcomponent namespace: birnlex_anatomy xref: SAO:sao666410040 is_a: NIF_Subcellular:sao628508602 ! Cellular Subcomponent property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Mitochondrial Subcomponent" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao666410040" xsd:string [Term] id: NIF_Subcellular:sao671419673 name: Microvilli namespace: birnlex_anatomy xref: SAO:sao671419673 is_a: NIF_Subcellular:sao1974433376 ! Regional Part Of Epithelial Cell property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/microvilli_2_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/microvilli_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Microvilli" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao671419673" xsd:string [Term] id: NIF_Subcellular:sao685712019 name: Regional Part Of Astrocyte namespace: birnlex_anatomy xref: SAO:sao685712019 is_a: NIF_Subcellular:sao895885284 ! Regional Part Of Glial Cell disjoint_from: NIF_Subcellular:sao1253297813 ! Glial Subcompartment disjoint_from: NIF_Subcellular:sao195217619 ! Regional Part Of Schwann Cell disjoint_from: NIF_Subcellular:sao831502550 ! Regional Part Of Oligodendrocyte property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of Astrocyte" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao685712019" xsd:string [Term] id: NIF_Subcellular:sao694815499 name: Coated Tip namespace: birnlex_anatomy def: "Coated tips of tubular endosomes that appear to be vesicles in the process of budding off (Clooney et al., 2002)." [] xref: SAO:sao694815499 is_a: NIF_Subcellular:sao1683772610 ! Endosomal Subcomponent property_value: http://www.w3.org/2004/02/skos/core#definition "Coated tips of tubular endosomes that appear to be vesicles in the process of budding off (Clooney et al., 2002)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Coated Tip" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao694815499" xsd:string [Term] id: NIF_Subcellular:sao700839054 name: Gap Junction Plaque namespace: birnlex_anatomy def: "An intercellular junction recognized in electron micrographs as a 7 layered structure with 4 dense lines, two from each of the plasma membranes, alternating with 3 lighter lines. The plaque is composed of multiple intercellular gap junction channels." [] xref: SAO:sao700839054 is_a: NIF_Subcellular:sao1395777368 ! Intercellular Junction disjoint_from: NIF_Subcellular:sao914572699 ! Synapse property_value: http://www.w3.org/2004/02/skos/core#definition "An intercellular junction recognized in electron micrographs as a 7 layered structure with 4 dense lines, two from each of the plasma membranes, alternating with 3 lighter lines. The plaque is composed of multiple intercellular gap junction channels." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Gap Junction Plaque" xsd:string property_value: nif_annot:sao_ID "sao700839054" xsd:string [Term] id: NIF_Subcellular:sao7016027781 name: Protein Aggregate namespace: birnlex_anatomy def: "An insoluble mass of misfolded proteins." [] xref: SAO:sao7016027781 is_a: NIF_Subcellular:sao3826089237 ! Aggregate Object property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "An insoluble mass of misfolded proteins." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Protein Aggregate" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao7016027781" xsd:string [Term] id: NIF_Subcellular:sao707332678 name: Axon Microtubule Fascicle namespace: birnlex_anatomy def: "Refers to the bundled configuration of microtubules in the axon hillock and initial segment." [] xref: SAO:sao707332678 is_a: NIF_Subcellular:sao1872343973 ! Microtubule Fascicle property_value: http://www.w3.org/2004/02/skos/core#definition "Refers to the bundled configuration of microtubules in the axon hillock and initial segment." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Axon Microtubule Fascicle" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao707332678" xsd:string [Term] id: NIF_Subcellular:sao710427438 name: Smooth Endoplasmic Reticulum namespace: birnlex_anatomy def: "The smooth ER has no ribosomes attached to it. The smooth is the recipient of the proteins synthesized in the rough ER. Those proteins to be exported are passed to the Golgi complex, the resident proteins are returned to the rough ER and the lysosomal proteins after phosphorylation of their mannose residues are passed to the lysosomes. Glycosylation of the glycoproteins also continues. The smooth ER is the site of synthesis of lipids, including the phospholipids. The membranes of the smooth ER also contain enzymes that catalyze a series of reactions to detoxify both lipid-soluble drugs and harmful products of metabolism. Large quantities of certain compounds such as phenobarbital cause an increase in the amount of the smooth ER (Gene Ontology)." [] xref: GO:0005790 xref: SAO:sao710427438 xref: UMLS:C0230789 is_a: NIF_Subcellular:sao1036339110 ! Endoplasmic Reticulum disjoint_from: NIF_Subcellular:sao1881364067 ! Rough Endoplasmic Reticulum property_value: http://www.w3.org/2004/02/skos/core#definition "The smooth ER has no ribosomes attached to it. The smooth is the recipient of the proteins synthesized in the rough ER. Those proteins to be exported are passed to the Golgi complex, the resident proteins are returned to the rough ER and the lysosomal proteins after phosphorylation of their mannose residues are passed to the lysosomes. Glycosylation of the glycoproteins also continues. The smooth ER is the site of synthesis of lipids, including the phospholipids. The membranes of the smooth ER also contain enzymes that catalyze a series of reactions to detoxify both lipid-soluble drugs and harmful products of metabolism. Large quantities of certain compounds such as phenobarbital cause an increase in the amount of the smooth ER (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/ser_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Smooth Endoplasmic Reticulum" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005790" xsd:string property_value: nif_annot:sao_ID "sao710427438" xsd:string property_value: nif_annot:umls_ID "C0230789" xsd:string [Term] id: NIF_Subcellular:sao725931194 name: Spine Apparatus namespace: birnlex_anatomy def: "A specialization of the endomembrane system found in some classes of spines consisting of two or more closely apposed lamellae with interspersed dense material." [] xref: SAO:sao725931194 xref: UMLS:C0230810 is_a: NIF_Subcellular:sao414196390 ! Membrane Bound Organelle disjoint_from: NIF_Subcellular:sao1036339110 ! Endoplasmic Reticulum disjoint_from: NIF_Subcellular:sao1702920020 ! Nucleus disjoint_from: NIF_Subcellular:sao1720343330 ! Endosome disjoint_from: NIF_Subcellular:sao1860313010 ! Mitochondrion disjoint_from: NIF_Subcellular:sao2045955158 ! Multivesicular Body disjoint_from: NIF_Subcellular:sao451912436 ! Golgi Apparatus disjoint_from: NIF_Subcellular:sao499555322 ! Peroxisome disjoint_from: NIF_Subcellular:sao585356902 ! Lysosome property_value: http://www.w3.org/2004/02/skos/core#definition "A specialization of the endomembrane system found in some classes of spines consisting of two or more closely apposed lamellae with interspersed dense material." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/spine_app_2_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/spine_app_3_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Spine Apparatus" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao725931194" xsd:string property_value: nif_annot:umls_ID "C0230810" xsd:string [Term] id: NIF_Subcellular:sao730872736 name: Dense Body namespace: birnlex_anatomy def: "An electron dense body, some of which contain granules (Peters, Palay and Webster (1991)" [] xref: SAO:sao730872736 is_a: NIF_Subcellular:sao-1337158144 ! Cellular Component disjoint_from: NIF_Subcellular:sao101633890 ! Cytosol disjoint_from: NIF_Subcellular:sao1081228141 ! Glycogen Granule disjoint_from: NIF_Subcellular:sao11978067 ! Basal Body disjoint_from: NIF_Subcellular:sao120573470 ! Cellular Inclusion disjoint_from: NIF_Subcellular:sao1397492660 ! Basal Lamina disjoint_from: NIF_Subcellular:sao1539965131 ! Organelle disjoint_from: NIF_Subcellular:sao1635329413 ! Cytoskeletal Element disjoint_from: NIF_Subcellular:sao1663586795 ! Plasma Membrane disjoint_from: NIF_Subcellular:sao1784069613 ! Synaptic Component disjoint_from: NIF_Subcellular:sao1938587839 ! Subplasmalemmal Coating disjoint_from: NIF_Subcellular:sao1969557946 ! Coated Pit disjoint_from: NIF_Subcellular:sao221389602 ! Vesicle disjoint_from: NIF_Subcellular:sao628508602 ! Cellular Subcomponent disjoint_from: NIF_Subcellular:sao787716553 ! Cilium disjoint_from: NIF_Subcellular:sao830981606 ! Intracellular Membrane property_value: http://www.w3.org/2004/02/skos/core#definition "An electron dense body, some of which contain granules (Peters, Palay and Webster (1991)" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Dense Body" xsd:string property_value: nif_annot:curationStatus "graph position temporary" xsd:string property_value: nif_annot:sao_ID "sao730872736" xsd:string [Term] id: NIF_Subcellular:sao732341560 name: Pinceau namespace: birnlex_anatomy def: "Supracellular structure formed by the descending axon collaterals of several cerebellar basket cells that wrap around the Purkinje cell initial segment. Although the axons contain many vesicles and form terminal endings, most do not synapse directly on the Purkinje cell initial segment but rather end blindly." [] xref: SAO:sao732341560 is_a: NIF_Subcellular:sao508165343 ! Supra Cellular Structure disjoint_from: NIF_Subcellular:sao1395777368 ! Intercellular Junction disjoint_from: NIF_Subcellular:sao205380252 ! Neuropil property_value: http://www.w3.org/2004/02/skos/core#definition "Supracellular structure formed by the descending axon collaterals of several cerebellar basket cells that wrap around the Purkinje cell initial segment. Although the axons contain many vesicles and form terminal endings, most do not synapse directly on the Purkinje cell initial segment but rather end blindly." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Pinceau" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao732341560" xsd:string [Term] id: NIF_Subcellular:sao7474011676 name: Alpha-Synuclein Fibril namespace: birnlex_anatomy def: "Insoluble fibrils that form in pathological conditions characterized by Lewy bodies, such as Parkinson's disease, dementia with Lewy bodies, and multiple system atrophy. Alpha-synuclein is the primary structural component." [] xref: SAO:sao7474011676 is_a: NIF_Subcellular:sao5051906853 ! Fibril property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Insoluble fibrils that form in pathological conditions characterized by Lewy bodies, such as Parkinson's disease, dementia with Lewy bodies, and multiple system atrophy. Alpha-synuclein is the primary structural component." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Alpha-Synuclein Fibril" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao7474011676" xsd:string [Term] id: NIF_Subcellular:sao7547390221 name: Collagen Fibril namespace: birnlex_anatomy def: "Delicate fibrils of collagen in connective tissue. It is composed of molecules of tropocollagen aggregated in linear array." [] xref: SAO:sao7547390221 is_a: NIF_Subcellular:sao5051906853 ! Fibril property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Delicate fibrils of collagen in connective tissue. It is composed of molecules of tropocollagen aggregated in linear array." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Collagen Fibril" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao7547390221" xsd:string [Term] id: NIF_Subcellular:sao7561423738 name: Filament namespace: birnlex_anatomy def: "" [] synonym: "Protein Filament" EXACT [] xref: SAO:sao7561423738 is_a: NIF_Subcellular:sao3826089237 ! Aggregate Object property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Filament" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao7561423738" xsd:string property_value: nif_obo_annot:synonym "Protein Filament" xsd:string [Term] id: NIF_Subcellular:sao758620702 name: Juxtaparanode namespace: birnlex_anatomy def: "Region of nodal complex adjacent to the paranode" [] xref: SAO:sao758620702 is_a: NIF_Subcellular:sao-596411490 ! Node Related Site property_value: http://www.w3.org/2004/02/skos/core#definition "Region of nodal complex adjacent to the paranode" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Juxtaparanode" xsd:string property_value: nif_annot:sao_ID "sao758620702" xsd:string [Term] id: NIF_Subcellular:sao772007592 name: Dense Core Vesicle namespace: birnlex_anatomy def: "40-60 nm vesicle containing an electron dense granule, 15-20 nm in diameter (Peters, Palay and Webster, 1991)." [] xref: SAO:sao772007592 xref: UMLS:C0887944 is_a: NIF_Subcellular:sao478230652 ! Granular Vesicle disjoint_from: NIF_Subcellular:sao2031592629 ! Neurosecretory Vesicle property_value: http://www.w3.org/2004/02/skos/core#definition "40-60 nm vesicle containing an electron dense granule, 15-20 nm in diameter (Peters, Palay and Webster, 1991)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/dense_core_vesicle_sw_512x412.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Dense Core Vesicle" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao772007592" xsd:string property_value: nif_annot:umls_ID "C0887944" xsd:string [Term] id: NIF_Subcellular:sao787716553 name: Cilium namespace: birnlex_anatomy def: "Cilia arising from neurons have been described in many different regions of the nervous system. Neuronal cilia have a \"9+0\" pattern, that is, they are missing the central pair of microtubules that characterizes most cilia (Peters, Palay and Webster, 1991)." [] xref: GO:0005929 xref: SAO:sao787716553 xref: UMLS:C0008778 is_a: NIF_Subcellular:sao-1337158144 ! Cellular Component disjoint_from: NIF_Subcellular:sao101633890 ! Cytosol disjoint_from: NIF_Subcellular:sao1081228141 ! Glycogen Granule disjoint_from: NIF_Subcellular:sao11978067 ! Basal Body disjoint_from: NIF_Subcellular:sao120573470 ! Cellular Inclusion disjoint_from: NIF_Subcellular:sao1397492660 ! Basal Lamina disjoint_from: NIF_Subcellular:sao1539965131 ! Organelle disjoint_from: NIF_Subcellular:sao1635329413 ! Cytoskeletal Element disjoint_from: NIF_Subcellular:sao1663586795 ! Plasma Membrane disjoint_from: NIF_Subcellular:sao1784069613 ! Synaptic Component disjoint_from: NIF_Subcellular:sao1938587839 ! Subplasmalemmal Coating disjoint_from: NIF_Subcellular:sao1969557946 ! Coated Pit disjoint_from: NIF_Subcellular:sao221389602 ! Vesicle disjoint_from: NIF_Subcellular:sao628508602 ! Cellular Subcomponent disjoint_from: NIF_Subcellular:sao730872736 ! Dense Body disjoint_from: NIF_Subcellular:sao830981606 ! Intracellular Membrane property_value: http://www.w3.org/2004/02/skos/core#definition "Cilia arising from neurons have been described in many different regions of the nervous system. Neuronal cilia have a \"9+0\" pattern, that is, they are missing the central pair of microtubules that characterizes most cilia (Peters, Palay and Webster, 1991)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/cilium_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Cilium" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005929" xsd:string property_value: nif_annot:sao_ID "sao787716553" xsd:string property_value: nif_annot:umls_ID "C0008778" xsd:string [Term] id: NIF_Subcellular:sao792027222 name: Pre-synaptic Active Zone namespace: birnlex_anatomy def: "A specialized presynaptic plasma membrane region where synaptic vesicles dock and fuse (Gene Ontology)." [] xref: GO:0048786 xref: SAO:sao792027222 is_a: NIF_Subcellular:sao2108323256 ! Pre-synaptic Site property_value: http://www.w3.org/2004/02/skos/core#definition "A specialized presynaptic plasma membrane region where synaptic vesicles dock and fuse (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/active_zone_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Pre-synaptic Active Zone" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0048786" xsd:string property_value: nif_annot:sao_ID "sao792027222" xsd:string [Term] id: NIF_Subcellular:sao793088923 name: Nissl Body namespace: birnlex_anatomy def: "Stacks of rough endoplasmic reticulum that stain intensely with basophilic dyes." [] xref: SAO:sao793088923 is_a: NIF_Subcellular:nlx_subcell_100315 ! Subcellular entity property_value: http://www.w3.org/2004/02/skos/core#definition "Stacks of rough endoplasmic reticulum that stain intensely with basophilic dyes." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Nissl Body" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao793088923" xsd:string [Term] id: NIF_Subcellular:sao797538226 name: Vesicle Lumen namespace: birnlex_anatomy def: "The volume enclosed by the membrane or protein that forms a vesicle (Gene Ontology)." [] xref: GO:0031983 xref: SAO:sao797538226 is_a: NIF_Subcellular:sao1289190043 ! Cellular Space disjoint_from: NIF_Subcellular:sao-343550527 ! Mitochondrial Space disjoint_from: NIF_Subcellular:sao1547508851 ! Endosomal Lumen disjoint_from: NIF_Subcellular:sao1819509473 ! RER Lumen disjoint_from: NIF_Subcellular:sao1908934319 ! Intranuclear Membrane Space disjoint_from: NIF_Subcellular:sao1956231674 ! Golgi Lumen disjoint_from: NIF_Subcellular:sao254777664 ! Schmidtt-Lanterman Cleft disjoint_from: NIF_Subcellular:sao927884761 ! SER Lumen property_value: http://www.w3.org/2004/02/skos/core#definition "The volume enclosed by the membrane or protein that forms a vesicle (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Vesicle Lumen" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0031983" xsd:string property_value: nif_annot:sao_ID "sao797538226" xsd:string [Term] id: NIF_Subcellular:sao819927218 name: Golgi-associated Vesicle namespace: birnlex_anatomy def: "Any vesicles associated with the Golgi complex and involved in mediating transport within the Golgi or between the Golgi and other parts of the cell (Gene Ontology)." [] xref: GO:0005798 xref: SAO:sao819927218 xref: UMLS:C0230767 is_a: NIF_Subcellular:sao624292949 ! Golgi Subcomponent disjoint_from: NIF_Subcellular:sao561419532 ! Golgi Lamellae property_value: http://www.w3.org/2004/02/skos/core#definition "Any vesicles associated with the Golgi complex and involved in mediating transport within the Golgi or between the Golgi and other parts of the cell (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Golgi-associated Vesicle" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005798" xsd:string property_value: nif_annot:sao_ID "sao819927218" xsd:string property_value: nif_annot:umls_ID "C0230767" xsd:string [Term] id: NIF_Subcellular:sao830092290 name: Internode Axon namespace: birnlex_anatomy xref: SAO:sao830092290 is_a: NIF_Subcellular:sao340271629 ! Regional Part Of Cell relationship: http://www.obofoundry.org/ro/ro.owl#proper_part_of NIF_Subcellular:sao1770195789 ! Axon disjoint_from: NIF_Subcellular:sao-188049490 ! Node Of Ranvier Axon disjoint_from: NIF_Subcellular:sao1191319089 ! Juxta Paranode Axon disjoint_from: NIF_Subcellular:sao936144858 ! Paranode Axon property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Internode Axon" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:hasFormerParentClass "NIF_Subcellular:sao1791490892" xsd:string property_value: nif_annot:sao_ID "sao830092290" xsd:string property_value: nif_obo_annot:modifiedDate "May 28, 2009" xsd:string [Term] id: NIF_Subcellular:sao830981606 name: Intracellular Membrane namespace: birnlex_anatomy def: "" [] xref: SAO:sao830981606 is_a: NIF_Subcellular:sao6433132645 ! Cellular Membrane disjoint_from: NIF_Subcellular:sao101633890 ! Cytosol disjoint_from: NIF_Subcellular:sao1081228141 ! Glycogen Granule disjoint_from: NIF_Subcellular:sao11978067 ! Basal Body disjoint_from: NIF_Subcellular:sao120573470 ! Cellular Inclusion disjoint_from: NIF_Subcellular:sao1397492660 ! Basal Lamina disjoint_from: NIF_Subcellular:sao1539965131 ! Organelle disjoint_from: NIF_Subcellular:sao1635329413 ! Cytoskeletal Element disjoint_from: NIF_Subcellular:sao1663586795 ! Plasma Membrane disjoint_from: NIF_Subcellular:sao1784069613 ! Synaptic Component disjoint_from: NIF_Subcellular:sao1938587839 ! Subplasmalemmal Coating disjoint_from: NIF_Subcellular:sao1969557946 ! Coated Pit disjoint_from: NIF_Subcellular:sao221389602 ! Vesicle disjoint_from: NIF_Subcellular:sao628508602 ! Cellular Subcomponent disjoint_from: NIF_Subcellular:sao730872736 ! Dense Body disjoint_from: NIF_Subcellular:sao787716553 ! Cilium property_value: http://www.w3.org/2004/02/skos/core#definition "" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Intracellular Membrane" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao830981606" xsd:string [Term] id: NIF_Subcellular:sao831502550 name: Regional Part Of Oligodendrocyte namespace: birnlex_anatomy xref: SAO:sao831502550 is_a: NIF_Subcellular:sao895885284 ! Regional Part Of Glial Cell disjoint_from: NIF_Subcellular:sao1253297813 ! Glial Subcompartment disjoint_from: NIF_Subcellular:sao195217619 ! Regional Part Of Schwann Cell disjoint_from: NIF_Subcellular:sao685712019 ! Regional Part Of Astrocyte property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of Oligodendrocyte" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao831502550" xsd:string [Term] id: NIF_Subcellular:sao8444068431 name: Autolysosome namespace: birnlex_anatomy def: "A type of secondary lysosome in which a primary lysosome has fused with the outer membrane of an autophagosome. It is involved in the second step of autophagy in which it degrades contents with acidic lysosomal hydrolases." [] synonym: "Autophagolysosome, degrading autophagic vacuole (AVd)" EXACT [] xref: SAO:sao8444068431 is_a: NIF_Subcellular:sao1549842807 ! Secondary Lysosome property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "A type of secondary lysosome in which a primary lysosome has fused with the outer membrane of an autophagosome. It is involved in the second step of autophagy in which it degrades contents with acidic lysosomal hydrolases." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Autolysosome" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao8444068431" xsd:string property_value: nif_obo_annot:synonym "Autophagolysosome, degrading autophagic vacuole (AVd)" xsd:string [Term] id: NIF_Subcellular:sao864921383 name: Regional Part Of Neuron namespace: birnlex_anatomy synonym: "neuron compartment" EXACT [] xref: SAO:sao864921383 is_a: NIF_Subcellular:sao340271629 ! Regional Part Of Cell disjoint_from: NIF_Subcellular:sao-1828894864 ! Cell Process disjoint_from: NIF_Subcellular:sao-82111036 ! Cell Protrusion disjoint_from: NIF_Subcellular:sao895885284 ! Regional Part Of Glial Cell property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of Neuron" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao864921383" xsd:string property_value: nif_obo_annot:synonym "neuron compartment" xsd:string [Term] id: NIF_Subcellular:sao866168499 name: Regional Part Of Spine namespace: birnlex_anatomy xref: SAO:sao866168499 is_a: NIF_Subcellular:sao864921383 ! Regional Part Of Neuron disjoint_from: NIF_Subcellular:sao-250931889 ! Neuron Protrusion disjoint_from: NIF_Subcellular:sao-420949334 ! Regional Part Of Neuron Process disjoint_from: NIF_Subcellular:sao-867568886 ! Neuron Process disjoint_from: NIF_Subcellular:sao1044911821 ! Neuronal Cell Body disjoint_from: NIF_Subcellular:sao1049717962 ! Regional Part Of Neuronal Cell Body property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of Spine" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao866168499" xsd:string [Term] id: NIF_Subcellular:sao8663416959 name: Autophagosome namespace: birnlex_anatomy def: "A vesicle with a double membrance derived from the Endoplasmic Reticulum that encloses cytoplasmic material and organelles to be degraded. Its formation is the first step of the process of autophagy." [] synonym: "autophagic vacuole, initial autophagic vacuole (AVi)" EXACT [] xref: SAO:sao8663416959 is_a: NIF_Subcellular:sao221389602 ! Vesicle property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "A vesicle with a double membrance derived from the Endoplasmic Reticulum that encloses cytoplasmic material and organelles to be degraded. Its formation is the first step of the process of autophagy." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Autophagosome" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao8663416959" xsd:string property_value: nif_obo_annot:synonym "autophagic vacuole, initial autophagic vacuole (AVi)" xsd:string [Term] id: NIF_Subcellular:sao873654461 name: Nodal Complex namespace: birnlex_anatomy xref: SAO:sao873654461 is_a: NIF_Subcellular:sao508165343 ! Supra Cellular Structure property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/node_ccdb_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Nodal Complex" xsd:string property_value: nif_annot:sao_ID "sao873654461" xsd:string [Term] id: NIF_Subcellular:sao877341397 name: Regional Part Of Tanycyte namespace: birnlex_anatomy xref: SAO:sao877341397 is_a: NIF_Subcellular:sao895885284 ! Regional Part Of Glial Cell disjoint_from: NIF_Subcellular:sao1974433376 ! Regional Part Of Epithelial Cell property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of Tanycyte" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao877341397" xsd:string [Term] id: NIF_Subcellular:sao879919129 name: Clathrin Coat namespace: birnlex_anatomy def: "A membrane coat found on coated pits and some coated vesicles; consists of polymerized clathrin triskelions, each comprising three clathrin heavy chains and three clathrin light chains, linked to the membrane via one of the AP adaptor complexes (Gene Ontology)." [] xref: GO:0030118 xref: SAO:sao879919129 xref: UMLS:C1166728 is_a: NIF_Subcellular:sao1177708494 ! Vesicle Coat property_value: http://www.w3.org/2004/02/skos/core#definition "A membrane coat found on coated pits and some coated vesicles; consists of polymerized clathrin triskelions, each comprising three clathrin heavy chains and three clathrin light chains, linked to the membrane via one of the AP adaptor complexes (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Clathrin Coat" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0030118" xsd:string property_value: nif_annot:sao_ID "sao879919129" xsd:string property_value: nif_annot:umls_ID "C1166728" xsd:string [Term] id: NIF_Subcellular:sao884265541 name: Dendritic Branch namespace: birnlex_anatomy def: "Refers to dendrites arising from another dendrite." [] xref: SAO:sao884265541 is_a: NIF_Subcellular:sao420754792 ! Regional Part Of Dendrite disjoint_from: NIF_Subcellular:sao-1348591767 ! Branch Point Of Dendrite disjoint_from: NIF_Subcellular:sao1078172392 ! Trunk disjoint_from: NIF_Subcellular:sao28175134 ! Terminal Specialization property_value: http://www.w3.org/2004/02/skos/core#definition "Refers to dendrites arising from another dendrite." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Dendritic Branch" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao884265541" xsd:string [Term] id: NIF_Subcellular:sao885490876 name: Transport Vesicle namespace: birnlex_anatomy def: "Any of the vesicles of the constitutive secretory pathway, which carry cargo from the ER to the Golgi, between Golgi cisternae, and to destinations within or outside the cell (Gene Ontolgoy)." [] synonym: "secretory vesicle" EXACT [] xref: GO:0030133 xref: SAO:sao885490876 xref: UMLS:C0887882 is_a: NIF_Subcellular:sao180601769 ! Cytoplasmic Vesicle disjoint_from: NIF_Subcellular:sao1071221672 ! Synaptic Vesicle disjoint_from: NIF_Subcellular:sao1362520468 ! Endocytic Vesicle disjoint_from: NIF_Subcellular:sao478230652 ! Granular Vesicle disjoint_from: NIF_Subcellular:sao577473346 ! Vesicle Other property_value: http://www.w3.org/2004/02/skos/core#definition "Any of the vesicles of the constitutive secretory pathway, which carry cargo from the ER to the Golgi, between Golgi cisternae, and to destinations within or outside the cell (Gene Ontolgoy)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Transport Vesicle" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0030133" xsd:string property_value: nif_annot:sao_ID "sao885490876" xsd:string property_value: nif_annot:umls_ID "C0887882" xsd:string property_value: nif_obo_annot:synonym "secretory vesicle" xsd:string [Term] id: NIF_Subcellular:sao895885284 name: Regional Part Of Glial Cell namespace: birnlex_anatomy xref: SAO:sao895885284 is_a: NIF_Subcellular:sao340271629 ! Regional Part Of Cell disjoint_from: NIF_Subcellular:sao-1828894864 ! Cell Process disjoint_from: NIF_Subcellular:sao-82111036 ! Cell Protrusion disjoint_from: NIF_Subcellular:sao864921383 ! Regional Part Of Neuron property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Regional Part Of Glial Cell" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao895885284" xsd:string [Term] id: NIF_Subcellular:sao901230115 name: Neck Portion namespace: birnlex_anatomy def: "Elongated portion of the tanycyte that sticks into the periventricular layer of neuropil where it appears to contact a blood vessel; characterized by numerous cytoplasmic extensions (Peters, Palay and Webster, 1991)." [] xref: SAO:sao901230115 is_a: NIF_Subcellular:sao877341397 ! Regional Part Of Tanycyte disjoint_from: NIF_Subcellular:sao1447478620 ! Pial Endfoot property_value: http://www.w3.org/2004/02/skos/core#definition "Elongated portion of the tanycyte that sticks into the periventricular layer of neuropil where it appears to contact a blood vessel; characterized by numerous cytoplasmic extensions (Peters, Palay and Webster, 1991)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Neck Portion" xsd:string property_value: nif_annot:sao_ID "sao901230115" xsd:string [Term] id: NIF_Subcellular:sao9117790637 name: Extracellular Structure namespace: birnlex_anatomy def: "Structure that exists outside the cell." [] xref: SAO:sao9117790637 is_a: NIF_Subcellular:nlx_subcell_100315 ! Subcellular entity property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Structure that exists outside the cell." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Extracellular Structure" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao9117790637" xsd:string [Term] id: NIF_Subcellular:sao9137852997 name: Plaque namespace: birnlex_anatomy def: "A formation or growth of cells." [] xref: SAO:sao9137852997 is_a: NIF_Subcellular:sao9117790637 ! Extracellular Structure property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "A formation or growth of cells." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Plaque" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao9137852997" xsd:string [Term] id: NIF_Subcellular:sao914572699 name: Synapse namespace: birnlex_anatomy def: "The junction between a nerve fiber of one neuron and another neuron or muscle fiber or glial cell; the site of interneuronal communication. As the nerve fiber approaches the synapse it enlarges into a specialized structure, the presynaptic nerve ending, which contains mitochondria and synaptic vesicles. At the tip of the nerve ending is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic nerve ending secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane (Gene Ontology)." [] xref: GO:0045202 xref: SAO:sao914572699 is_a: NIF_Subcellular:sao1395777368 ! Intercellular Junction disjoint_from: NIF_Subcellular:sao700839054 ! Gap Junction Plaque property_value: http://www.w3.org/2004/02/skos/core#definition "The junction between a nerve fiber of one neuron and another neuron or muscle fiber or glial cell; the site of interneuronal communication. As the nerve fiber approaches the synapse it enlarges into a specialized structure, the presynaptic nerve ending, which contains mitochondria and synaptic vesicles. At the tip of the nerve ending is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic nerve ending secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Synapse" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0045202" xsd:string property_value: nif_annot:sao_ID "sao914572699" xsd:string [Term] id: NIF_Subcellular:sao924713546 name: Terminal Loop namespace: birnlex_anatomy def: "Portion of myelin-forming Schwann cell consisting of terminal cytoplasmic extensions adhered to the axon at the beginning and end of the myelin sheath." [] xref: SAO:sao924713546 is_a: NIF_Subcellular:sao195217619 ! Regional Part Of Schwann Cell property_value: http://www.w3.org/2004/02/skos/core#definition "Portion of myelin-forming Schwann cell consisting of terminal cytoplasmic extensions adhered to the axon at the beginning and end of the myelin sheath." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Terminal Loop" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao924713546" xsd:string [Term] id: NIF_Subcellular:sao927884761 name: SER Lumen namespace: birnlex_anatomy def: "The volume enclosed by the membranes of the smooth endoplasmic reticulum (Gene Ontology)." [] synonym: "smooth endoplasmic reticulum lumen" EXACT [] xref: GO:0048238 xref: SAO:sao927884761 is_a: NIF_Subcellular:sao1289190043 ! Cellular Space disjoint_from: NIF_Subcellular:sao-343550527 ! Mitochondrial Space disjoint_from: NIF_Subcellular:sao1547508851 ! Endosomal Lumen disjoint_from: NIF_Subcellular:sao1819509473 ! RER Lumen disjoint_from: NIF_Subcellular:sao1908934319 ! Intranuclear Membrane Space disjoint_from: NIF_Subcellular:sao1956231674 ! Golgi Lumen disjoint_from: NIF_Subcellular:sao254777664 ! Schmidtt-Lanterman Cleft disjoint_from: NIF_Subcellular:sao797538226 ! Vesicle Lumen property_value: http://www.w3.org/2004/02/skos/core#definition "The volume enclosed by the membranes of the smooth endoplasmic reticulum (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "SER Lumen" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0048238" xsd:string property_value: nif_annot:sao_ID "sao927884761" xsd:string property_value: nif_obo_annot:synonym "smooth endoplasmic reticulum lumen" xsd:string [Term] id: NIF_Subcellular:sao936144858 name: Paranode Axon namespace: birnlex_anatomy xref: SAO:sao936144858 is_a: NIF_Subcellular:sao340271629 ! Regional Part Of Cell relationship: http://www.obofoundry.org/ro/ro.owl#proper_part_of NIF_Subcellular:sao1770195789 ! Axon disjoint_from: NIF_Subcellular:sao-188049490 ! Node Of Ranvier Axon disjoint_from: NIF_Subcellular:sao1191319089 ! Juxta Paranode Axon disjoint_from: NIF_Subcellular:sao830092290 ! Internode Axon property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Paranode Axon" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:hasFormerParentClass "NIF_Subcellular:sao1791490892" xsd:string property_value: nif_annot:sao_ID "sao936144858" xsd:string property_value: nif_obo_annot:modifiedDate "May 28, 2009" xsd:string [Term] id: NIF_Subcellular:sao937871668 name: Spiny Bracelet Of Nageotte namespace: birnlex_anatomy def: "Paranodal terminations of Schwann cells that do not directly contact the paranodal axon membane. Usually found in thicker myelin. (Sosinsky et al., 2005)" [] xref: SAO:sao937871668 is_a: NIF_Subcellular:sao195217619 ! Regional Part Of Schwann Cell property_value: http://www.w3.org/2004/02/skos/core#definition "Paranodal terminations of Schwann cells that do not directly contact the paranodal axon membane. Usually found in thicker myelin. (Sosinsky et al., 2005)" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Spiny Bracelet Of Nageotte" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao937871668" xsd:string [Term] id: NIF_Subcellular:sao9456487 name: Trans Golgi Network namespace: birnlex_anatomy def: "A network of membrane compartments, located at the cytoplasmic side of the golgi apparatus, where proteins and lipids are sorted for transport to various locations in the cell or cell membrane (MSH)." [] xref: GO:0005802 xref: SAO:sao9456487 xref: UMLS:C0887838 is_a: NIF_Subcellular:sao1546288504 ! Regional Part Of Golgi disjoint_from: NIF_Subcellular:sao1039242387 ! Trans Face disjoint_from: NIF_Subcellular:sao138219748 ! Vesicular Component disjoint_from: NIF_Subcellular:sao632188024 ! Cis Face property_value: http://www.w3.org/2004/02/skos/core#definition "A network of membrane compartments, located at the cytoplasmic side of the golgi apparatus, where proteins and lipids are sorted for transport to various locations in the cell or cell membrane (MSH)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Trans Golgi Network" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005802" xsd:string property_value: nif_annot:sao_ID "sao9456487" xsd:string property_value: nif_annot:umls_ID "C0887838" xsd:string [Term] id: NIF_Subcellular:sao95019936 name: Centriole namespace: birnlex_anatomy def: "A cellular organelle, found close to the nucleus in many eukaryotic cells, consisting of a small cylinder with microtubular walls, 300-500 nm long and 150-250 nm in diameter. It contains nine short, parallel, peripheral microtubular fibrils, each fibril consisting of one complete microtubule fused to two incomplete microtubules. Cells usually have two centrioles, lying at right angles to each other. At division, each pair of centrioles generates another pair and the twin pairs form the pole of the mitotic spindle (Gene Ontology)." [] xref: GO:0005814 xref: SAO:sao95019936 xref: UMLS:C0007708 is_a: NIF_Subcellular:sao1456184038 ! Non Membrane Bound Organelle disjoint_from: NIF_Subcellular:sao1429207766 ! Ribosome disjoint_from: NIF_Subcellular:sao1820400233 ! Nucleolus property_value: http://www.w3.org/2004/02/skos/core#definition "A cellular organelle, found close to the nucleus in many eukaryotic cells, consisting of a small cylinder with microtubular walls, 300-500 nm long and 150-250 nm in diameter. It contains nine short, parallel, peripheral microtubular fibrils, each fibril consisting of one complete microtubule fused to two incomplete microtubules. Cells usually have two centrioles, lying at right angles to each other. At division, each pair of centrioles generates another pair and the twin pairs form the pole of the mitotic spindle (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/centriole_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Centriole" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005814" xsd:string property_value: nif_annot:sao_ID "sao95019936" xsd:string property_value: nif_annot:umls_ID "C0007708" xsd:string [Term] id: NIF_Subcellular:sao9515821206 name: Neuritic plaque namespace: birnlex_anatomy def: "A characteristic form of amyloid plaque. Has an extracellular core of amyloid fibrils surrounded by dystrophic dendrites and axons, some of which contain protein filaments, activated microglia and reactive astrocytes." [] xref: SAO:sao9515821206 is_a: NIF_Subcellular:sao9137852997 ! Plaque property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "A characteristic form of amyloid plaque. Has an extracellular core of amyloid fibrils surrounded by dystrophic dendrites and axons, some of which contain protein filaments, activated microglia and reactive astrocytes." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Neuritic Plaque" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao9515821206" xsd:string [Term] id: NIF_Subcellular:sao952483289 name: Intermediate Filament namespace: birnlex_anatomy def: "A distinct elongated structure, characteristically 10 nm in diameter, that occurs in the cytoplasm of higher eukaryotic cells. Intermediate filaments form a fibrous system, composed of chemically heterogeneous subunits and involved in mechanically integrating the various components of the cytoplasmic space. Intermediate filaments may be divided into five chemically distinct classes: keratin filaments of mammalian epithelial cells; desmin filaments found in cells of muscles of all types; vimentin filaments found in mesenchymal cells; neurofilaments of neurons; and glial filaments found in all types of glial cells (Gene Ontology)." [] xref: GO:0005882 xref: SAO:sao952483289 xref: UMLS:C0021770 is_a: NIF_Subcellular:sao1635329413 ! Cytoskeletal Element disjoint_from: NIF_Subcellular:sao1846835077 ! Microtubule disjoint_from: NIF_Subcellular:sao2006047981 ! Microfilament property_value: http://www.w3.org/2004/02/skos/core#definition "A distinct elongated structure, characteristically 10 nm in diameter, that occurs in the cytoplasm of higher eukaryotic cells. Intermediate filaments form a fibrous system, composed of chemically heterogeneous subunits and involved in mechanically integrating the various components of the cytoplasmic space. Intermediate filaments may be divided into five chemically distinct classes: keratin filaments of mammalian epithelial cells; desmin filaments found in cells of muscles of all types; vimentin filaments found in mesenchymal cells; neurofilaments of neurons; and glial filaments found in all types of glial cells (Gene Ontology)." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Intermediate Filament" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:gene_Ontology_ID "0005882" xsd:string property_value: nif_annot:sao_ID "sao952483289" xsd:string property_value: nif_annot:umls_ID "C0021770" xsd:string [Term] id: NIF_Subcellular:sao952643730 name: Spine Head namespace: birnlex_anatomy xref: SAO:sao952643730 is_a: NIF_Subcellular:sao866168499 ! Regional Part Of Spine disjoint_from: NIF_Subcellular:sao1642908940 ! Spine Neck disjoint_from: NIF_Subcellular:sao553737851 ! Spinule property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Spine Head" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao952643730" xsd:string [Term] id: NIF_Subcellular:sao9537723288 name: Neuropil Thread namespace: birnlex_anatomy def: "Abnormal structures located in distal dendrites. Filamentous bundles made up of straight and paried helical filaments which contain ubiquitin and tau." [] xref: SAO:sao9537723288 is_a: NIF_Subcellular:sao3826089237 ! Aggregate Object property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Abnormal structures located in distal dendrites. Filamentous bundles made up of straight and paried helical filaments which contain ubiquitin and tau." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Neuropil Thread" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao9537723288" xsd:string [Term] id: NIF_Subcellular:sao9615155060 name: Senile Plaque namespace: birnlex_anatomy def: "Extracellular deposits of Beta-amyloid / 8-10 nm amyloid fibrils that are polymers of amyloid-Beta protein. They are located in grey matter and associated with degenerative neural structures and an abundance of microglia and astrocytes." [] synonym: "amyloid plaques, senile druse, braindruse" EXACT [] xref: SAO:sao9615155060 is_a: NIF_Subcellular:sao9137852997 ! Plaque property_value: dc:contributor "Sarah M. Maynard" xsd:string property_value: http://www.w3.org/2004/02/skos/core#definition "Extracellular deposits of Beta-amyloid / 8-10 nm amyloid fibrils that are polymers of amyloid-Beta protein. They are located in grey matter and associated with degenerative neural structures and an abundance of microglia and astrocytes." xsd:string property_value: http://www.w3.org/2004/02/skos/core#example "http://ccdb.ucsd.edu/SAO/images/senile_plaque_sw_512x512.jpg" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Senile Plaque" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao9615155060" xsd:string property_value: nif_obo_annot:synonym "amyloid plaques, senile druse, braindruse" xsd:string [Term] id: NIF_Subcellular:sao967812059 name: Fibrillary Inclusion namespace: birnlex_anatomy def: "Cellular inclusion found in cytoplasm of giant cells of Dieters in lateral vestibular nucleus of the rat consisting of circular areas filled with fine slender filaments about 10 nanometers in diameter, delimited by a wall of varying complexity either a single continuous membrane or a tubular network consisting of a fine filamentous material giving the wall a honeycomb appearance. Similar structures have been discribed in the ventral cochlear nucleus, spinal cord, substantia nigra. First described by Sitelo and Palay, 1968. (from Peters, Palay, and Webster)" [] xref: SAO:sao967812059 is_a: NIF_Subcellular:sao120573470 ! Cellular Inclusion property_value: http://www.w3.org/2004/02/skos/core#definition "Cellular inclusion found in cytoplasm of giant cells of Dieters in lateral vestibular nucleus of the rat consisting of circular areas filled with fine slender filaments about 10 nanometers in diameter, delimited by a wall of varying complexity either a single continuous membrane or a tubular network consisting of a fine filamentous material giving the wall a honeycomb appearance. Similar structures have been discribed in the ventral cochlear nucleus, spinal cord, substantia nigra. First described by Sitelo and Palay, 1968. (from Peters, Palay, and Webster)" xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Fibrillary Inclusion" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao967812059" xsd:string [Term] id: NIF_Subcellular:sao976831666 name: Lumen Cargo namespace: birnlex_anatomy def: "Refers to cargo carried in the lumen of the vesicle; may be crystalized or otherwise bound, e.g., insulin." [] xref: SAO:sao976831666 is_a: NIF_Subcellular:sao1490223249 ! Vesicle Cargo disjoint_from: NIF_Subcellular:sao1037637579 ! Membrane Cargo property_value: http://www.w3.org/2004/02/skos/core#definition "Refers to cargo carried in the lumen of the vesicle; may be crystalized or otherwise bound, e.g., insulin." xsd:string property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Lumen Cargo" xsd:string property_value: nif_annot:sao_ID "sao976831666" xsd:string [Term] id: NIF_Subcellular:sao978443756 name: Endosomal Membrane namespace: birnlex_anatomy xref: SAO:sao978443756 is_a: NIF_Subcellular:sao830981606 ! Intracellular Membrane disjoint_from: NIF_Subcellular:sao1045389829 ! Mitochondrial Membrane disjoint_from: NIF_Subcellular:sao1153182838 ! Vesicle Membrane property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Endosomal Membrane" xsd:string property_value: nif_annot:curationStatus "uncurated" xsd:string property_value: nif_annot:sao_ID "sao978443756" xsd:string [Term] id: NIF_Subcellular:sao991156472 name: Cell Component Aggregate Object namespace: birnlex_anatomy is_obsolete: true xref: SAO:sao991156472 disjoint_from: NIF_Subcellular:sao1970895398 ! Cell Regional Part Aggregate Object disjoint_from: NIF_Subcellular:sao508165343 ! Supra Cellular Structure property_value: http://www.w3.org/2004/02/skos/core#prefLabel "Cell Component Aggregate Object" xsd:string property_value: nif_annot:sao_ID "sao991156472" xsd:string [Term] id: NIF_UBO:birnlex_8 namespace: birnlex_anatomy [Term] id: NIF_Cell:nifext_142 is_obsolete: true [Typedef] id: http://www.obofoundry.org/ro/ro.owl#has_part [Typedef] id: http://www.obofoundry.org/ro/ro.owl#has_proper_part [Typedef] id: http://www.obofoundry.org/ro/ro.owl#proper_part_of