IntAct European Bioinformatics Institute IntAct intact http://www.ebi.ac.uk/ http://www.ebi.ac.uk/intact/query/${ac} EBI-[0-9]+|IA:[0-9]+ INTerAction database (IntAct) provides an open source database and toolkit for the storage, presentation and analysis of molecular interactions. http://www.ebi.ac.uk/intact European Bioinformatics Institute; Wellcome Trust Genome Campus; Hinxton, Cambridge; CB10 1SD; United Kingdom http://www.ebi.ac.uk/intact/ http://www.ebi.ac.uk/ yu-2010-1 An integrated network of androgen receptor, polycomb, and TMPRSS2-ERG gene fusions in prostate cancer progression. human-vcap Human VCaP prostate cancer cell line vcap VCaP Human prostate cancer cell line http://www.biocompare.com/ProductDetails/1838978/VCaP.html This line was established in 1997 from a vertebral bone metastasis from a patient with hormone refractory prostate cancer. It was passaged as xenografts in mice then cultured in vitro. It is androgen sensitive in vitro and in vivo. Contains the TMPRSS2�ERG gene fusion. ch-ip chromatin immunoprecipitation assay ch-ip nucleotide sequence nucleotide sequence identification sequence cloning sequence cloning nucleotide sequence Yu J., Yu J., Mani RS., Cao Q., Brenner CJ., Cao X., Wang X., Wu L., Li J., Hu M., Gong Y., Cheng H., Laxman B., Vellaichamy A., Shankar S., Li Y., Dhanasekaran SM., Morey R., Barrette T., Lonigro RJ., Tomlins SA., Varambally S., Qin ZS., Chinnaiyan AM. Cancer - Interactions investigated in the context of cancer chIP-seq: direct sequencing of chIP/DNA samples using Illumina Genome Analyser. Source of AR taken from PMID: 15648093 arul@umich.edu Cancer Cell (1535-6108) 2010 Only protein-protein interactions imex curation yu-2010-6 An integrated network of androgen receptor, polycomb, and TMPRSS2-ERG gene fusions in prostate cancer progression. human-lncap Human caucasian prostate carcinoma lncap Human caucasian prostate adenocarcinoma ch-ip chromatin immunoprecipitation assay ch-ip primer specific pcr primer specific pcr Yu J., Yu J., Mani RS., Cao Q., Brenner CJ., Cao X., Wang X., Wu L., Li J., Hu M., Gong Y., Cheng H., Laxman B., Vellaichamy A., Shankar S., Li Y., Dhanasekaran SM., Morey R., Barrette T., Lonigro RJ., Tomlins SA., Varambally S., Qin ZS., Chinnaiyan AM. Cancer - Interactions investigated in the context of cancer chIP-seq: direct sequencing of chIP/DNA samples using Illumina Genome Analyser. Source of AR taken from PMID: 15648093 arul@umich.edu Cancer Cell (1535-6108) 2010 Only protein-protein interactions imex curation yu-2010-2 An integrated network of androgen receptor, polycomb, and TMPRSS2-ERG gene fusions in prostate cancer progression. human-vcap Human VCaP prostate cancer cell line vcap VCaP Human prostate cancer cell line http://www.biocompare.com/ProductDetails/1838978/VCaP.html This line was established in 1997 from a vertebral bone metastasis from a patient with hormone refractory prostate cancer. It was passaged as xenografts in mice then cultured in vitro. It is androgen sensitive in vitro and in vivo. Contains the TMPRSS2�ERG gene fusion. ch-ip chromatin immunoprecipitation assay ch-ip primer specific pcr primer specific pcr Yu J., Yu J., Mani RS., Cao Q., Brenner CJ., Cao X., Wang X., Wu L., Li J., Hu M., Gong Y., Cheng H., Laxman B., Vellaichamy A., Shankar S., Li Y., Dhanasekaran SM., Morey R., Barrette T., Lonigro RJ., Tomlins SA., Varambally S., Qin ZS., Chinnaiyan AM. Cancer - Interactions investigated in the context of cancer chIP-seq: direct sequencing of chIP/DNA samples using Illumina Genome Analyser. Source of AR taken from PMID: 15648093 arul@umich.edu Cancer Cell (1535-6108) 2010 Only protein-protein interactions imex curation yu-2010-5 An integrated network of androgen receptor, polycomb, and TMPRSS2-ERG gene fusions in prostate cancer progression. human-lncap Human caucasian prostate carcinoma lncap Human caucasian prostate adenocarcinoma ch-ip chromatin immunoprecipitation assay ch-ip nucleotide sequence nucleotide sequence identification sequence cloning sequence cloning nucleotide sequence Yu J., Yu J., Mani RS., Cao Q., Brenner CJ., Cao X., Wang X., Wu L., Li J., Hu M., Gong Y., Cheng H., Laxman B., Vellaichamy A., Shankar S., Li Y., Dhanasekaran SM., Morey R., Barrette T., Lonigro RJ., Tomlins SA., Varambally S., Qin ZS., Chinnaiyan AM. Cancer - Interactions investigated in the context of cancer chIP-seq: direct sequencing of chIP/DNA samples using Illumina Genome Analyser. Source of AR taken from PMID: 15648093 arul@umich.edu Cancer Cell (1535-6108) 2010 Only protein-protein interactions imex curation yu-2010-3 An integrated network of androgen receptor, polycomb, and TMPRSS2-ERG gene fusions in prostate cancer progression. human-vcap Human VCaP prostate cancer cell line vcap VCaP Human prostate cancer cell line http://www.biocompare.com/ProductDetails/1838978/VCaP.html This line was established in 1997 from a vertebral bone metastasis from a patient with hormone refractory prostate cancer. It was passaged as xenografts in mice then cultured in vitro. It is androgen sensitive in vitro and in vivo. Contains the TMPRSS2�ERG gene fusion. anti bait coip anti bait coimmunoprecipitation anti bait coip western blot western blot Immuno blot Immuno blot Yu J., Yu J., Mani RS., Cao Q., Brenner CJ., Cao X., Wang X., Wu L., Li J., Hu M., Gong Y., Cheng H., Laxman B., Vellaichamy A., Shankar S., Li Y., Dhanasekaran SM., Morey R., Barrette T., Lonigro RJ., Tomlins SA., Varambally S., Qin ZS., Chinnaiyan AM. Cancer - Interactions investigated in the context of cancer chIP-seq: direct sequencing of chIP/DNA samples using Illumina Genome Analyser. Source of AR taken from PMID: 15648093 arul@umich.edu Cancer Cell (1535-6108) 2010 Only protein-protein interactions imex curation yu-2010-4 An integrated network of androgen receptor, polycomb, and TMPRSS2-ERG gene fusions in prostate cancer progression. in vitro In vitro pull down pull down anti tag western anti tag western blot anti tag western Yu J., Yu J., Mani RS., Cao Q., Brenner CJ., Cao X., Wang X., Wu L., Li J., Hu M., Gong Y., Cheng H., Laxman B., Vellaichamy A., Shankar S., Li Y., Dhanasekaran SM., Morey R., Barrette T., Lonigro RJ., Tomlins SA., Varambally S., Qin ZS., Chinnaiyan AM. Cancer - Interactions investigated in the context of cancer chIP-seq: direct sequencing of chIP/DNA samples using Illumina Genome Analyser. Source of AR taken from PMID: 15648093 arul@umich.edu Cancer Cell (1535-6108) 2010 Only protein-protein interactions imex curation yu-2010-7 An integrated network of androgen receptor, polycomb, and TMPRSS2-ERG gene fusions in prostate cancer progression. human-prostate_carcinoma Homo sapiens prostate carcinoma prostate_carcinoma Prostate carcinoma (cancer) anti bait coip anti bait coimmunoprecipitation anti bait coip western blot western blot Immuno blot Immuno blot Yu J., Yu J., Mani RS., Cao Q., Brenner CJ., Cao X., Wang X., Wu L., Li J., Hu M., Gong Y., Cheng H., Laxman B., Vellaichamy A., Shankar S., Li Y., Dhanasekaran SM., Morey R., Barrette T., Lonigro RJ., Tomlins SA., Varambally S., Qin ZS., Chinnaiyan AM. Cancer - Interactions investigated in the context of cancer chIP-seq: direct sequencing of chIP/DNA samples using Illumina Genome Analyser. Source of AR taken from PMID: 15648093 arul@umich.edu Cancer Cell (1535-6108) 2010 Only protein-protein interactions imex curation erg_human Transcriptional regulator ERG ERG Transforming protein ERG protein protein human Homo sapiens Human MASTIKEALSVVSEDQSLFECAYGTPHLAKTEMTASSSSDYGQTSKMSPRVPQQDWLSQPPARVTIKMECNPSQVNGSRNSPDECSVAKGGKMVGSPDTVGMNYGSYMEEKHMPPPNMTTNERRVIVPADPTLWSTDHVRQWLEWAVKEYGLPDVNILLFQNIDGKELCKMTKDDFQRLTPSYNADILLSHLHYLRETPLPHLTSDDVDKALQNSPRLMHARNTGGAAFIFPNTSVYPEATQRITTRPDLPYEPPRRSAWTGHGHPTPQSKAAQPSPSTVPKTEDQRPQLDPYQILGPTSSRLANPGSGQIQLWQFLLELLSDSSNSSCITWEGTNGEFKMTDPDEVARRWGERKSKPNMNYDKLSRALRYYYDKNIMTKVHGKRYAYKFDFHGIAQALQPHPPESSLYKYPSDLPYMGSYHAHPQKMNFVAPHPPALPVTSSSFFAAPNPYWNSPTGGIYPNTRLPTSHMPSHLGTYY urok_human_gene Human Urokinase-type plasminogen activator gene gene gene human Homo sapiens Human tpa_human_gene Human Plat gene;Tissue-type plasminogen activator gene gene human Homo sapiens Human mmp3_human_gene Human MMP3 gene-Stromelysin-1 gene gene human Homo sapiens Human mmp9_human_gene Human MMP9 gene;Matrix metalloproteinase-9 gene gene human Homo sapiens Human ndrg1_human_gene Human NDRG1 gene gene gene human Homo sapiens Human c6orf81_human_gene Human C6orf81 gene gene gene human Homo sapiens Human cux2_human_gene Human CUTL2 gene:Homeobox protein cut-like 2 gene gene human Homo sapiens Human andr_human Androgen receptor Dihydrotestosterone receptor Nuclear receptor subfamily 3 group C member 4 AR DHTR NR3C4 protein protein human Homo sapiens Human MEVQLGLGRVYPRPPSKTYRGAFQNLFQSVREVIQNPGPRHPEAASAAPPGASLLLLQQQQQQQQQQQQQQQQQQQQQQQETSPRQQQQQQGEDGSPQAHRRGPTGYLVLDEEQQPSQPQSALECHPERGCVPEPGAAVAASKGLPQQLPAPPDEDDSAAPSTLSLLGPTFPGLSSCSADLKDILSEASTMQLLQQQQQEAVSEGSSSGRAREASGAPTSSKDNYLGGTSTISDNAKELCKAVSVSMGLGVEALEHLSPGEQLRGDCMYAPLLGVPPAVRPTPCAPLAECKGSLLDDSAGKSTEDTAEYSPFKGGYTKGLEGESLGCSGSAAAGSSGTLELPSTLSLYKSGALDEAAAYQSRDYYNFPLALAGPPPPPPPPHPHARIKLENPLDYGSAWAAAAAQCRYGDLASLHGAGAAGPGSGSPSAAASSSWHTLFTAEEGQLYGPCGGGGGGGGGGGGGGGGGGGGGGGEAGAVAPYGYTRPPQGLAGQESDFTAPDVWYPGGMVSRVPYPSPTCVKSEMGPWMDSYSGPYGDMRLETARDHVLPIDYYFPPQKTCLICGDEASGCHYGALTCGSCKVFFKRAAEGKQKYLCASRNDCTIDKFRRKNCPSCRLRKCYEAGMTLGARKLKKLGNLKLQEEGEASSTTSPTEETTQKLTVSHIEGYECQPIFLNVLEAIEPGVVCAGHDNNQPDSFAALLSSLNELGERQLVHVVKWAKALPGFRNLHVDDQMAVIQYSWMGLMVFAMGWRSFTNVNSRMLYFAPDLVFNEYRMHKSRMYSQCVRMRHLSQEFGWLQITPQEFLCMKALLLFSIIPVDGLKNQKFFDELRMNYIKELDRIIACKRKNPTSCSRRFYQLTKLLDSVQPIARELHQFTFDLLIKSHMVSVDFPEMMAEIISVQVPKILSGKVKPIYFHTQ andr_human_gene Human androgen Receptor gene gene human Homo sapiens Human klk3_human_gene Human kallikrein-related peptidase 3 (KLK3) (PSA) gene gene human Homo sapiens Human klk2_human_gene Human Kallikrein-2 gene gene gene human Homo sapiens Human lat3_human_gene Human SLC43A1 gene gene gene human Homo sapiens Human fkbp5_human_gene Human FKBP5 gene gene gene human Homo sapiens Human ezh2_human _gene Human Histone-lysine N-methyltransferase EZH2 gene gene gene human Homo sapiens Human tmps2_human_gene Human TMPS2/TMPRSS2 gene gene gene human Homo sapiens Human s45a3_human_gene Human SLC45A3 gene:Solute carrier family 45 member 3 gene gene human Homo sapiens Human dpca2_human_gene Human C15orf21 gene:Dresden prostate carcinoma protein 2 gene gene human Homo sapiens Human zbt16_human_gene Human ZBTB16 gene;Zinc finger and BTB domain-containing protein 16. gene gene human Homo sapiens Human adrb2_human_gene Human ADRB2 gene; Beta-2 adrenergic receptor gene gene human Homo sapiens Human socs2_human_gene Human SOCS2 gene:Suppressor of cytokine signaling 2 gene gene human Homo sapiens Human cadh1_human_gene Human CDH1gene:Epithelial cadherin gene gene human Homo sapiens Human dab2p_human_gene Human DAB2IP gene:Disabled homolog 2-interacting protein gene gene human Homo sapiens Human syua_human_gene Human SNCA gene:Alpha-synuclein gene gene human Homo sapiens Human cnr1_human_gene Human CNR1gene:Cannabinoid receptor 1 gene gene human Homo sapiens Human fam174b_human_gene Human FAM174B gene, LOC400451. gene gene human Homo sapiens Human p11308-1 Transcriptional regulator ERG ERG Transforming protein ERG ERG-2 protein protein human Homo sapiens Human MIQTVPDPAAHIKEALSVVSEDQSLFECAYGTPHLAKTEMTASSSSDYGQTSKMSPRVPQQDWLSQPPARVTIKMECNPSQVNGSRNSPDECSVAKGGKMVGSPDTVGMNYGSYMEEKHMPPPNMTTNERRVIVPADPTLWSTDHVRQWLEWAVKEYGLPDVNILLFQNIDGKELCKMTKDDFQRLTPSYNADILLSHLHYLRETPLPHLTSDDVDKALQNSPRLMHARNTDLPYEPPRRSAWTGHGHPTPQSKAAQPSPSTVPKTEDQRPQLDPYQILGPTSSRLANPGSGQIQLWQFLLELLSDSSNSSCITWEGTNGEFKMTDPDEVARRWGERKSKPNMNYDKLSRALRYYYDKNIMTKVHGKRYAYKFDFHGIAQALQPHPPESSLYKYPSDLPYMGSYHAHPQKMNFVAPHPPALPVTSSSFFAAPNPYWNSPTGGIYPNTRLPTSHMPSHLGTYY erg-urok 917966 n/a 917973 unspecified role unspecified role bait bait n/a 917974 unspecified role unspecified role prey prey association association false false false Fig 2A. ChIP-Seq analysis of VCaP cells detected ERG binding to regions around intron one and exon two of the Plau gene. erg-plat 917966 n/a 917975 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig 2A. ChIP-Seq analysis of VCaP cells detected ERG binding to the upstream region of the Plat gene. erg-mmp3 917966 n/a 917973 unspecified role unspecified role bait bait n/a 917976 unspecified role unspecified role prey prey association association false false false Fig 2A. ChIP-Seq analysis of VCaP cells detected ERG binding to a downstream region of the MMP3 gene. erg-mmp9 917966 n/a 917977 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig 2A. ChIP-Seq analysis of VCaP cells detected ERG binding to a region around exons 10-12 of the MMP9 gene. erg-ndrg1 917966 n/a 917978 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig 3D. Representative genes co-occupied by AR and ERG. erg-c6orf81 917966 n/a 917979 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig 3D. Representative genes co-occupied by AR and ERG. erg-cutl2 917966 n/a 917980 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig 3D, S3B. Representative genes co-occupied by AR and ERG. ar-ndrg1 917966 n/a 917981 unspecified role unspecified role bait bait n/a 917978 unspecified role unspecified role prey prey association association false false false Fig 3D. Representative genes co-occupied by AR and ERG. VCaP cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. ar-c6orf81-1 917966 n/a 917981 unspecified role unspecified role bait bait n/a 917979 unspecified role unspecified role prey prey association association false false false Fig 3D. Representative genes co-occupied by AR and ERG. VCaP cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. ar-cutl2-1 917966 n/a 917981 unspecified role unspecified role bait bait n/a 917980 unspecified role unspecified role prey prey association association false false false Fig 3D, S3B. Representative genes co-occupied by AR and ERG. VCaP cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. erg-ar-3 917966 n/a 917982 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig 4A. AR and ERG co-bind to upstream regions of the AR gene. ar-ar 917966 n/a 917981 unspecified role unspecified role bait bait n/a 917982 unspecified role unspecified role prey prey association association false false false Fig 4A. AR and ERG co-bind to upstream regions of the AR gene. VCaP cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. erg-klk3 917966 n/a 917973 unspecified role unspecified role bait bait n/a 917983 unspecified role unspecified role prey prey association association false false false Fig 5A. AR and ERG cobinding to regulatory regions of representative AR target genes. P11308 decreases expression at RNA level of ENSG00000142515 ar-klk3-3 917966 n/a 917983 unspecified role unspecified role prey prey n/a 917981 unspecified role unspecified role bait bait association association false false false Fig 5A. AR and ERG cobinding to regulatory regions of representative AR target genes. VCaP cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. ar-klk2 917966 n/a 917984 unspecified role unspecified role prey prey n/a 917981 unspecified role unspecified role bait bait association association false false false Fig 5A. AR and ERG cobinding to regulatory regions of representative AR target genes. VCaP cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. erg-klk2 917966 n/a 917973 unspecified role unspecified role bait bait n/a 917984 unspecified role unspecified role prey prey association association false false false Fig 5A. AR and ERG cobinding to regulatory regions of representative AR target genes. P11308 decreases expression at RNA level of ENSG00000167751 erg-slc43a1 917966 n/a 917985 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig 5A. AR and ERG cobinding to regulatory regions of representative AR target genes. P11308 decreases expression at RNA level of ENSG00000149150 ar-slc43a1 917966 n/a 917985 unspecified role unspecified role prey prey n/a 917981 unspecified role unspecified role bait bait association association false false false Fig 5A. AR and ERG cobinding to regulatory regions of representative AR target genes. VCaP cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. ar-fkbp5 917966 n/a 917986 unspecified role unspecified role prey prey n/a 917981 unspecified role unspecified role bait bait association association false false false Fig 5A. AR and ERG cobinding to regulatory regions of representative AR target genes. VCaP cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. erg-fkbp5 917966 n/a 917986 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig 5A. AR and ERG cobinding to regulatory regions of representative AR target genes. erg-ezh2 917966 n/a 917987 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig 7A. ERG binds to the EZH2 promoter region. ar-tmps2-2 917966 n/a 917988 unspecified role unspecified role prey prey n/a 917981 unspecified role unspecified role bait bait association association false false false Fig S1C. AR binding to regulatory elements of the androgen-sensitive 5' partners of gene fusions in prostate cancer. VCaP cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. ar-slc45a3 917966 n/a 917989 unspecified role unspecified role prey prey n/a 917981 unspecified role unspecified role bait bait association association false false false Fig S1C. AR binding to regulatory elements of the androgen-sensitive 5' partners of gene fusions in prostate cancer. Cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. ar-c15orf21 917966 n/a 917990 unspecified role unspecified role prey prey n/a 917981 unspecified role unspecified role bait bait association association false false false Fig S1C. AR binding to regulatory elements of the androgen-sensitive 5' partners of gene fusions in prostate cancer. Cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. erg-zbt16-1 917966 n/a 917991 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig S3B. Representative genes co-occupied by AR and ERG. VCaP cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. ar-zbt16-1 917966 n/a 917991 unspecified role unspecified role prey prey n/a 917981 unspecified role unspecified role bait bait association association false false false Fig S3B. Representative genes co-occupied by AR and ERG. VCaP cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. erg-adrb2 917966 n/a 917992 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig S6B. ChIP-Seq analysis demonstrated ERG binding to a number of previously reported EZH2 target genes. erg-socs2 917966 n/a 917993 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig S6B. ChIP-Seq analysis demonstrated ERG binding to a number of previously reported EZH2 target genes. erg-cdh1 917966 n/a 917994 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig S6B. ChIP-Seq analysis demonstrated ERG binding to a number of previously reported EZH2 target genes. erg-dab2ip 917966 n/a 917995 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig S6B. ChIP-Seq analysis demonstrated ERG binding to a number of previously reported EZH2 target genes. erg-snca 917966 n/a 917996 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig S6B. ChIP-Seq analysis demonstrated ERG binding to a number of previously reported EZH2 target genes. ar-tmps2-4 917967 n/a 917981 unspecified role unspecified role bait bait n/a 917988 unspecified role unspecified role prey prey association association false false false Fig S1C. AR binding to regulatory elements of the androgen-sensitive 5' partners of gene fusions in prostate cancer. ChIP-PCR was used to confirm AR binding in the androgen-treated vs. control-treated LNCaP cells. Cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. ar-slc45a3-2 917967 n/a 917981 unspecified role unspecified role bait bait n/a 917989 unspecified role unspecified role prey prey association association false false false Fig S1C. AR binding to regulatory elements of the androgen-sensitive 5' partners of gene fusions in prostate cancer. ChIP-PCR was used to confirm AR binding in the androgen-treated vs. control-treated LNCaP cells. Cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. ar-c15orf21-2 917967 n/a 917981 unspecified role unspecified role bait bait n/a 917990 unspecified role unspecified role prey prey association association false false false Fig S1C. AR binding to regulatory elements of the androgen-sensitive 5' partners of gene fusions in prostate cancer. ChIP-PCR was used to confirm AR binding in the androgen-treated vs. control-treated LNCaP cells. Cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. ar-klk3-4 917967 n/a 917983 unspecified role unspecified role prey prey n/a 917981 unspecified role unspecified role bait bait association association false false false Fig S5C. ChIP-PCR analysis of LNCaP cells following ERG titration revealed gradually increased ERG binding, but decreased AR binding, on these gene-specific genomic loci. LNCaP cells were infected with increasing amounts of adenovirus expressing ERG. Cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. erg-klk3-1 917967 n/a 917983 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig S5C. ChIP-PCR analysis of LNCaP cells following ERG titration revealed gradually increased ERG binding, but decreased AR binding, on these gene-specific genomic loci. LNCaP cells were infected with increasing amounts of adenovirus expressing ERG. ar-klk2-1 917967 n/a 917981 unspecified role unspecified role bait bait n/a 917984 unspecified role unspecified role prey prey association association false false false Fig S5C. ChIP-PCR analysis of LNCaP cells following ERG titration revealed gradually increased ERG binding, but decreased AR binding, on these gene-specific genomic loci. Cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. LNCaP cells were infected with increasing amounts of adenovirus expressing ERG. erg-klk2-1 917967 n/a 917984 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig S5C. ChIP-PCR analysis of LNCaP cells following ERG titration revealed gradually increased ERG binding, but decreased AR binding, on these gene-specific genomic loci. LNCaP cells were infected with increasing amounts of adenovirus expressing ERG. ar-tmps2-5 917967 n/a 917988 unspecified role unspecified role prey prey n/a 917981 unspecified role unspecified role bait bait association association false false false Fig S5C. ChIP-PCR analysis of LNCaP cells following ERG titration revealed gradually increased ERG binding, but decreased AR binding, on these gene-specific genomic loci. Cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. LNCaP cells were infected with increasing amounts of adenovirus expressing ERG. erg-tmps2 917967 n/a 917973 unspecified role unspecified role bait bait n/a 917988 unspecified role unspecified role prey prey association association false false false Fig S5C. ChIP-PCR analysis of LNCaP cells following ERG titration revealed gradually increased ERG binding, but decreased AR binding, on these gene-specific genomic loci. LNCaP cells were infected with increasing amounts of adenovirus expressing ERG. erg-adrb2-1 917967 n/a 917992 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig S6C. ERG recruitment to EZH2 target genes in LNCaP cells with ERG overexpression. 'ERG overexpression' probably refers to LNCaP cell infection with adenovirus expressing ERG, though this is not stated in the figure legend. erg-cdh1-1 917967 n/a 917994 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig S6C. ERG recruitment to EZH2 target genes in LNCaP cells with ERG overexpression. 'ERG overexpression' probably refers to LNCaP cell infection with adenovirus expressing ERG, though this is not stated in the figure legend. erg-dab2ip-1 917967 n/a 917995 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig S6C. ERG recruitment to EZH2 target genes in LNCaP cells with ERG overexpression. 'ERG overexpression' probably refers to LNCaP cell infection with adenovirus expressing ERG, though this is not stated in the figure legend. erg-cnr1 917967 n/a 917973 unspecified role unspecified role bait bait n/a 917997 unspecified role unspecified role prey prey association association false false false Fig S6C. ERG recruitment to EZH2 target genes in LNCaP cells with ERG overexpression. 'ERG overexpression' probably refers to LNCaP cell infection with adenovirus expressing ERG, though this is not stated in the figure legend. erg-socs2-1 917967 n/a 917993 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig S6C. ERG recruitment to EZH2 target genes in LNCaP cells with ERG overexpression. 'ERG overexpression' probably refers to LNCaP cell infection with adenovirus expressing ERG, though this is not stated in the figure legend. erg-cutl2-1 917968 n/a 917980 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig 3E. ChIP-PCR confirms AR and ERG co-occupancy on selected genes. VCaP cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. erg-c6orf81-1 917968 n/a 917973 unspecified role unspecified role bait bait n/a 917979 unspecified role unspecified role prey prey association association false false false Fig 3E. ChIP-PCR confirms AR and ERG co-occupancy on selected genes. VCaP cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. erg-ndrg1-1 917968 n/a 917973 unspecified role unspecified role bait bait n/a 917978 unspecified role unspecified role prey prey association association false false false Fig 3E. ChIP-PCR confirms AR and ERG co-occupancy on selected genes. VCaP cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. ar-c6orf81-2 917968 n/a 917979 unspecified role unspecified role prey prey n/a 917981 unspecified role unspecified role bait bait association association false false false Fig 3E. ChIP-PCR confirms AR and ERG co-occupancy on selected genes. VCaP cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. ar-cutl2-2 917968 n/a 917980 unspecified role unspecified role prey prey n/a 917981 unspecified role unspecified role bait bait association association false false false Fig 3E. ChIP-PCR confirms AR and ERG co-occupancy on selected genes. VCaP cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. ar-ndrg1-1 917968 n/a 917978 unspecified role unspecified role prey prey n/a 917981 unspecified role unspecified role bait bait association association false false false Fig 3E. ChIP-PCR confirms AR and ERG co-occupancy on selected genes. VCaP cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. erg-loc400451 917968 n/a 917998 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig 3E. ChIP-PCR confirms AR and ERG co-occupancy on selected genes. VCaP cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. ar-loc400451 917968 n/a 917981 unspecified role unspecified role bait bait n/a 917998 unspecified role unspecified role prey prey association association false false false Fig 3E. ChIP-PCR confirms AR and ERG co-occupancy on selected genes. VCaP cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. erg-zbt16 917968 n/a 917973 unspecified role unspecified role bait bait n/a 917991 unspecified role unspecified role prey prey association association false false false Fig 3E. ChIP-PCR confirms AR and ERG co-occupancy on selected genes. VCaP cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. ar-zbt16 917968 n/a 917981 unspecified role unspecified role bait bait n/a 917991 unspecified role unspecified role prey prey association association false false false Fig 3E. ChIP-PCR confirms AR and ERG co-occupancy on selected genes. VCaP cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. erg-ar-4 917968 n/a 917982 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig 4B. ChIP-PCR confirms ERG binding to an upstream region of the AR gene. erg-ezh2-1 917968 n/a 917987 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait association association false false false Fig 7A. Confirmation that ERG binds to the EZH2 promoter region. ar-tmps2-3 917969 n/a 917988 unspecified role unspecified role prey prey n/a 917981 unspecified role unspecified role bait bait association association false false false Fig S1C. AR binding to regulatory elements of the androgen-sensitive 5' partners of gene fusions in prostate cancer. Cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. ar-slc45a3-1 917969 n/a 917989 unspecified role unspecified role prey prey n/a 917981 unspecified role unspecified role bait bait association association false false false Fig S1C. AR binding to regulatory elements of the androgen-sensitive 5' partners of gene fusions in prostate cancer. Cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. ar-c15orf21-1 917969 n/a 917990 unspecified role unspecified role prey prey n/a 917981 unspecified role unspecified role bait bait association association false false false Fig S1C. AR binding to regulatory elements of the androgen-sensitive 5' partners of gene fusions in prostate cancer. Cells were treated with R1881, a synthetic androgen., to increase nuclear binding and activate AR transcription factor activity. erg-ar 917970 n/a 917981 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait physical association physical association false false false Fig 3G Coimmunoprecipitation assays demonstrated an endogenous interaction between the AR and ERG proteins; this interaction between AR and ERG was DNA independent. erg-ar-1 917971 n/a 917999 unspecified role unspecified role bait bait halo-erg fusion protein fusion protein undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined false ets domain sufficient to bind sufficient binding region sufficient to bind certain certain sequence position certain certain certain sequence position certain false in vitro In vitro n/a 917981 unspecified role unspecified role prey prey n terminus gst tag glutathione s tranferase tag glutathione S-tranferase tag glutathione S-tranferase tag gst tag undetermined undetermined sequence position undetermined undetermined undetermined sequence position undetermined false dna_plus_ligand_bd dna and ligand binding domain sufficient to bind sufficient binding region sufficient to bind inferred by curator inferred by curator modelled by curator modeled by curator range range range range false physical association physical association false false false Fig 3H, S3F. AR directly bound to the ETS domain of the ERG protein. This interaction was further pinpointed to the C-terminal half (ETS-3) of the ETS domain. erg-ar-5 917972 n/a 917981 unspecified role unspecified role prey prey n/a 917973 unspecified role unspecified role bait bait physical association physical association false false false Fig S3E. Coimmunoprecipitation assays demonstrated an endogenous interaction between the AR and ERG proteins; this interaction between AR and ERG was DNA independent.