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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, MBP-Associated Serine Protease-Related Protein, SCAR16, ALS14, PRSS5, ter, 7.12, DmelCG2331, Histone H2b, Histone H2a, ASPCR1, DmelCG5203, RCCX1, MASP Related Protein, Proteases, Tfe-3, RCCP2, VCP ATPase, Histone H3., MASP3, DmTER94, 2310040B03Rik, Histone H3.3, VCP, Vcp, TERA, NY-CO-7, I, Chip, ChIP, 15S Mg(2+)-ATPase p97 subunit, dvcp, 3MC1, MASP-Related, CHIP, Mannan Binding Lectin Serine Proteases, MAP1, p97/VCP, Mannose Binding Protein Associated Serine Protease, Mannan-Binding Lectin Serine Proteases, 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, CRARF1, PP1131, Histone H1, MBL-Associated Serine Proteases, MAp44, aspl, cdc48, l(2)k04405, rcc17, MBP Associated Serine Protease Related Protein, p97, CG5203, CG2331, asps, l(2)04405, UBXN9, Histone, IBMPFD1, MBP-Associated, 3.6.4.6, dmTERA, Tera, TFEA, ASPS, Tcfe3, Protein, ASPL, Mannose-Binding Protein-Associated Serine Protease, CRARF, BcDNA:GM02885, pTER94, BcDNA.GM02885, ASPC, SDCCAG7, ubxd9, Valosin-containing protein, dLdb, ubxn9, MASP Proteases, Ldb, LDB, HEL-220, MASP, Chromatin Immunoprecipitation, 3110001E05, CDC48, MBP Associated Serine Protease, Serine Proteases, anon-WO2004063362.65, CG3924, anon-WO2004063362.67, Histone H1(s), l(2)46Ch, RaRF, TUG, dLDB/Chip, VCP/p97, l(2)46CFs, p97|VCP, bacterial transcription, MASP-Related Protein, UBXD9, MBL-Associated, F830016E06Rik, MBL Associated Serine Proteases, Apple, Serine Protease, TER ATPase, MBP-Associated Serine Protease, MASPs, l(2)46CFfHSPABP2, HEL-S-70, RGD1559642, 2210017D18Rik, dCHIP, Ter94, MBP-Associated Serine Protease-Related Protein, SCAR16, ALS14, PRSS5, ter, 7.12, DmelCG2331, Histone H2b, Histone H2a, ASPCR1, DmelCG5203, RCCX1, MASP Related Protein, Proteases, Tfe-3, RCCP2, VCP ATPase, Histone H3., MASP3, DmTER94, 2310040B03Rik, Histone H3.3, VCP, Vcp, TERA, NY-CO-7, I, Chip, ChIP, 15S Mg(2+)-ATPase p97 subunit, dvcp, 3MC1, MASP-Related, CHIP, Mannan Binding Lectin Serine Proteases, MAP1, p97/VCP, Mannose Binding Protein Associated Serine Protease, Mannan-Binding Lectin Serine Proteases, 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, CRARF1, PP1131, Histone H1, MBL-Associated Serine Proteases, MAp44, aspl, cdc48, l(2)k04405, rcc17, MBP Associated Serine Protease Related Protein, p97, CG5203, CG2331, asps, l(2)04405, UBXN9, Histone, IBMPFD1, MBP-Associated, 3.6.4.6, dmTERA, Tera, TFEA, ASPS, Tcfe3, Protein, ASPL, Mannose-Binding Protein-Associated Serine Protease, CRARF, BcDNA:GM02885, pTER94, BcDNA.GM02885, ASPC, SDCCAG7, ubxd9, Valosin-containing protein, dLdb, ubxn9, MASP Proteases, Ldb, LDB, HEL-220, MASP, Chromatin Immunoprecipitation, 3110001E05, CDC48, MBP Associated Serine Protease, Serine Proteases, anon-WO2004063362.65, CG3924, anon-WO2004063362.67, Histone H1(s), l(2)46Ch, RaRF, TUG, dLDB/Chip, VCP/p97, l(2)46CFs, p97|VCP, bacterial transcription, MASP-Related Protein, UBXD9, MBL-Associated, F830016E06Rik, MBL Associated Serine Proteases, Apple, Serine Protease, TER ATPase, MBP-Associated Serine Protease, MASPs, l(2)46CFffalseASPSCR1-TFE3 reprograms transcription by organizing enhancers around hexameric VCP [mASPS_ChIP, histone_markers]ASPSCR1-TFE3 reprograms transcription by organizing enhancers around hexameric VCP [mASPS_ChIP, histone_markers]2025-09-242023-01-27PRJNA681927GSE1624771009038326311