ENAapplication/xmlftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR131/017/SRR13178517/SRR13178517_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR131/013/SRR13178513/SRR13178513_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR131/015/SRR13178515/SRR13178515_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR131/016/SRR13178516/SRR13178516_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR131/009/SRR13178509/SRR13178509_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR131/011/SRR13178511/SRR13178511_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR131/013/SRR13178513/SRR13178513_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR131/014/SRR13178514/SRR13178514_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR131/018/SRR13178518/SRR13178518_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR131/010/SRR13178510/SRR13178510_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR131/012/SRR13178512/SRR13178512_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR131/010/SRR13178510/SRR13178510_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR131/016/SRR13178516/SRR13178516_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR131/018/SRR13178518/SRR13178518_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR131/017/SRR13178517/SRR13178517_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR131/012/SRR13178512/SRR13178512_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR131/011/SRR13178511/SRR13178511_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR131/015/SRR13178515/SRR13178515_2.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR131/014/SRR13178514/SRR13178514_1.fastq.gzftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR131/009/SRR13178509/SRR13178509_2.fastq.gzprimaryOK200GenomicsState key laboratories of Agrobiotechnology, College of biological sciences, China Agricutural Universityhttps://www.ebi.ac.uk/ena/browser/view/PRJNA681933Homo sapiensChIPseq experiments identify that ASPSCR1-TFE3 defines active enhancers across the genome and co-distributes with VCP/p97. RNAseq after knock-down of ASPSCR1-TFE3 or VCP, inhibition of VCP, or overexpression of each in alveolar soft part sarcoma cell lines demonstrates their co-dependence. HiChIP defines chromatin conformations that surround ASPSCR1-TFE3 targets and are lost on VCP knock-down. Overall design: ASPS cell lines, tumors from ASPS mouse model and tumors from ASPS patients are used for ChIP-seq with antibodies against ASPSCR1, VCP, POLII and various histone modifications. RNAseq in ASPS cell lines after application of siRNA against control, ASPSCR1-TFE3, or VCP, or application of VCP inhibitor CB-5083. H3K27ac-HiChIP in the FU-UR-1 cell line at baseline and after 6 days of siRNA against VCP.xref:PubMed:38326311ENAHSPABP2, HEL-S-70, RGD1559642, 2210017D18Rik, dCHIP, Ter94, SCAR16, ALS14, ter, 7.12, DmelCG2331, Histone H2b, Histone H2a, ASPCR1, DmelCG5203, RCCX1, Tfe-3, RCCP2, VCP ATPase, Histone H3., DmTER94, 2310040B03Rik, Histone H3.3, VCP, Vcp, TERA, NY-CO-7, I, Chip, ChIP, 15S Mg(2+)-ATPase p97 subunit, dvcp, CHIP, p97/VCP, 1190006K01Rik, IBMPFD, chip, l(2)03775, 22.26, aspcr1, dTERA, ter94, DmelCG3924, AW046544, Histone H5, dVCP, Histone H4, Histone H7, bHLHe33, UBOX1, 0610033N24Rik, transcription from bacterial-type RNA polymerase promoter, RCC17, PP1131, Histone H1, aspl, cdc48, l(2)k04405, rcc17, p97, CG5203, CG2331, asps, l(2)04405, UBXN9, Histone, IBMPFD1, 3.6.4.6, dmTERA, Tera, TFEA, ASPS, Tcfe3, ASPL, BcDNA:GM02885, pTER94, BcDNA.GM02885, ASPC, SDCCAG7, ubxd9, Valosin-containing protein, dLdb, ubxn9, Ldb, LDB, HEL-220, Chromatin Immunoprecipitation, 3110001E05, CDC48, anon-WO2004063362.65, CG3924, anon-WO2004063362.67, Histone H1(s), l(2)46Ch, TUG, dLDB/Chip, VCP/p97, l(2)46CFs, p97|VCP, bacterial transcription, UBXD9, F830016E06Rik, Apple, TER ATPase, l(2)46CFfHSPABP2, HEL-S-70, RGD1559642, 2210017D18Rik, dCHIP, Ter94, SCAR16, ALS14, ter, 7.12, DmelCG2331, Histone H2b, Histone H2a, ASPCR1, DmelCG5203, RCCX1, Tfe-3, RCCP2, VCP ATPase, Histone H3., DmTER94, 2310040B03Rik, Histone H3.3, VCP, Vcp, TERA, NY-CO-7, I, Chip, ChIP, 15S Mg(2+)-ATPase p97 subunit, dvcp, CHIP, p97/VCP, 1190006K01Rik, IBMPFD, chip, l(2)03775, 22.26, aspcr1, dTERA, ter94, DmelCG3924, AW046544, Histone H5, dVCP, Histone H4, Histone H7, bHLHe33, UBOX1, 0610033N24Rik, transcription from bacterial-type RNA polymerase promoter, RCC17, PP1131, Histone H1, aspl, cdc48, l(2)k04405, rcc17, p97, CG5203, CG2331, asps, l(2)04405, UBXN9, Histone, IBMPFD1, 3.6.4.6, dmTERA, Tera, TFEA, ASPS, Tcfe3, ASPL, BcDNA:GM02885, pTER94, BcDNA.GM02885, ASPC, SDCCAG7, ubxd9, Valosin-containing protein, dLdb, ubxn9, Ldb, LDB, HEL-220, Chromatin Immunoprecipitation, 3110001E05, CDC48, anon-WO2004063362.65, CG3924, anon-WO2004063362.67, Histone H1(s), l(2)46Ch, TUG, dLDB/Chip, VCP/p97, l(2)46CFs, p97|VCP, bacterial transcription, UBXD9, F830016E06Rik, Apple, TER ATPase, l(2)46CFffalseASPSCR1-TFE3 reprograms transcription by organizing enhancers around hexameric VCP [hASPS_ChIP, histone_markers]ASPSCR1-TFE3 reprograms transcription by organizing enhancers around hexameric VCP [hASPS_ChIP, histone_markers]2025-09-242023-01-27PRJNA681933GSE162479960638326311