FF:10158-103A5: Difference between revisions
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{{f5samples | {{f5samples | ||
|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0007023 | |DRA_sample_Accession=CAGE@SAMD00005263 | ||
|DRA_sample_Accession_RNASeq=RNA-Seq@SAMD00005263 | |||
|HumanCAGEScanFiles=NCig10029;http://fantom.gsc.riken.jp/5/datafiles/phase2.3/basic/human.tissue.CAGEScan/substantia%2520nigra%252c%2520adult%252c%2520donor10252.NCig10029.10158-103A5.hg19.GCTATA.3prime.fq.gz;http://fantom.gsc.riken.jp/5/datafiles/phase2.3/basic/human.tissue.CAGEScan/substantia%2520nigra%252c%2520adult%252c%2520donor10252.NCig10029.10158-103A5.hg19.GCTATA.5prime.fq.gz;http://fantom.gsc.riken.jp/5/datafiles/phase2.3/basic/human.tissue.CAGEScan/substantia%2520nigra%252c%2520adult%252c%2520donor10252.NCig10029.10158-103A5.hg19.GCTATA.bam;http://fantom.gsc.riken.jp/5/datafiles/phase2.3/basic/human.tissue.CAGEScan/substantia%2520nigra%252c%2520adult%252c%2520donor10252.NCig10029.10158-103A5.hg19.GCTATA.pairs.bed.gz | |||
|accession_numbers=CAGE;DRX008735;DRR009607;DRZ001032;DRZ002417;DRZ012382;DRZ013767 | |||
|accession_numbers_RNASeq=RNA-Seq;DRX057153;DRR062912;DRZ007988 | |||
|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0007023,UBERON:0000955,UBERON:0002038,UBERON:0000479,UBERON:0004121,UBERON:0000064,UBERON:0010314,UBERON:0011216,UBERON:0000062,UBERON:0000061,UBERON:0000465,UBERON:0000481,UBERON:0000073,UBERON:0000477,UBERON:0003528,UBERON:0002791,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0009663,UBERON:0002420,UBERON:0002616,UBERON:0002780,UBERON:0009661,UBERON:0000125,UBERON:0002950,UBERON:0002020,UBERON:0007245,UBERON:0010317,UBERON:0002308,UBERON:0010009,UBERON:0001017,UBERON:0001016,UBERON:0001893,UBERON:0001890,UBERON:0001891,UBERON:0010011,UBERON:0000454 | |||
|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003 | |ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003 | ||
|ancestors_in_disease_facet= | |ancestors_in_disease_facet= | ||
|ancestors_in_ff_facet=FF:0000102,FF:0000210,FF:0000002,FF:0000101,FF:0000001,FF:0000998,FF:0000004,FF:0010158 | |||
|comment= | |comment= | ||
|created_by= | |created_by= | ||
|creation_date= | |creation_date= | ||
|datafreeze_phase= | |data_phase=2 | ||
|datafreeze_phase=2 | |||
|def= | |def= | ||
|expression_enrichment_score=chr7:100065686..100065701,-!p2@TSC22D4!2.81!650.91!TSC22D4;;chr22:38380543..38380569,-!p1@SOX10!2.53!339.28!SOX10;;chr21:34442439..34442455,+!p1@OLIG1!2.45!277.65!OLIG1;;chr11:61520075..61520136,+!p1@C11orf9!2.33!437.62!C11orf9;;chr8:53322304..53322340,-!p1@ST18!2.29!193.08!ST18;;chr10:134599649..134599653,-!p1@NKX6-2!2.12!129.87!NKX6-2;;chr2:145277882..145277967,-!p3@ZEB2!1.93!141.19!ZEB2;;chr16:1031762..1031781,+!p1@SOX8!1.91!80.27!SOX8;;chr10:48355030..48355090,+!p1@ZNF488!1.87!93.17!ZNF488;;chr2:105470562..105470582,+!p@chr2:105470562..105470582,+!1.87!73.96!POU3F3;;chr8:53322347..53322378,-!p2@ST18!1.86!71.67!ST18;;chr21:34398234..34398250,+!p1@OLIG2!1.85!70.38!OLIG2;;chr3:181429704..181429722,+!p1@SOX2!1.81!64.22!SOX2;;chr12:26277817..26277863,-!p2@BHLHE41!1.80!82.71!BHLHE41;;chr12:26277956..26277980,-!p1@BHLHE41!1.74!184.33!BHLHE41;;chr21:34442540..34442560,+!p2@OLIG1!1.74!54.33!OLIG1;;chr11:113930425..113930471,+!p1@ZBTB16!1.71!71.96!ZBTB16;;chr19:46801639..46801699,+!p1@HIF3A!1.67!46.01!HIF3A;;chr11:47400078..47400106,-!p1@SPI1!1.60!38.42!SPI1;;chr3:126076242..126076257,-!p1@KLF15!1.59!47.30!KLF15;;chr4:81118647..81118666,+!p1@PRDM8!1.56!46.73!PRDM8;;chr16:85932760..85932775,+!p1@IRF8!1.56!35.40!IRF8;;chr19:57352087..57352102,-!p1@PEG3,p1@ZIM2!1.56!35.26!PEG3;;chr9:114287433..114287513,+!p1@ZNF483!1.54!84.14!ZNF483;;chr1:214161272..214161322,+!p1@PROX1!1.49!41.43!PROX1;;chr12:106976774..106976788,+!p1@RFX4!1.48!29.38!RFX4;;chr2:105470536..105470556,+!p@chr2:105470536..105470556,+!1.45!27.23!POU3F3;;chr19:13135386..13135435,+!p4@NFIX!1.44!26.52!NFIX;;chr12:106976678..106976708,+!p2@RFX4!1.41!24.51!RFX4;;chr15:80696703..80696754,+!p1@ARNT2!1.40!31.68!ARNT2;;chr12:54779511..54779577,-!p5@ZNF385A!1.37!22.22!ZNF385A;;chr3:181429741..181429767,+!p2@SOX2!1.35!21.64!SOX2;;chr16:79634624..79634642,-!p1@MAF!1.34!80.70!MAF;;chr19:30863271..30863338,+!p1@ZNF536!1.34!20.78!ZNF536;;chr16:51185172..51185197,-!p1@SALL1!1.32!20.07!SALL1;;chr3:126076264..126076305,-!p2@KLF15!1.31!26.80!KLF15;;chr2:178128250..178128293,-!p6@NFE2L2!1.30!47.02!NFE2L2;;chr7:115670804..115670825,-!p1@TFEC!1.30!18.78!TFEC;;chr19:21512144..21512191,-!p2@ZNF708!1.29!85.00!ZNF708;;chr7:63505799..63505904,+!p1@ZNF727!1.29!18.49!ZNF727;;chr12:26277929..26277955,-!p3@BHLHE41!1.28!25.37!BHLHE41;;chr6:28321971..28321995,-!p1@ZNF323!1.27!17.77!ZNF323;;chr16:51185318..51185348,-!p2@SALL1!1.27!17.49!SALL1;;chrX:2418949..2419024,-!p1@DHRSX,p1@ZBED1!1.25!16.91!ZBED1;;chr2:68592406..68592424,+!p1@PLEK!1.24!16.48!PLEK;;chr1:61548069..61548102,+!p3@NFIA!1.23!38.56!NFIA;;chr17:47439437..47439533,-!p1@ZNF652!1.22!124.28!ZNF652;;chr19:13135582..13135600,+!p3@NFIX!1.22!15.48!NFIX;;chr10:64134120..64134183,+!p1@ZNF365!1.21!18.49!ZNF365;;chr19:21512115..21512135,-!p3@ZNF708!1.20!30.53!ZNF708;;chr14:33408072..33408114,+!p2@NPAS3!1.19!17.34!NPAS3;;chr16:67198633..67198671,+!p1@HSF4!1.19!14.33!HSF4;;chr20:21494654..21494678,-!p2@NKX2-2!1.19!14.33!NKX2-2;;chr2:214016314..214016343,-!p2@IKZF2!1.18!23.65!IKZF2;;chr22:41763452..41763466,+!p2@TEF!1.17!13.76!TEF;;chr12:103351444..103351461,+!p1@ASCL1!1.17!13.76!ASCL1;;chr6:19837592..19837621,+!p1@ID4!1.16!82.56!ID4;;chr1:40105299..40105326,-!p1@HEYL!1.16!13.47!HEYL;;chr8:53322411..53322422,-!p6@ST18!1.16!13.33!ST18;;chr2:95963052..95963106,+!p1@KCNIP3!1.15!13.19!KCNIP3;;chr20:50159198..50159299,-!p1@NFATC2!1.14!18.63!NFATC2;;chr3:114343039..114343085,-!p8@ZBTB20!1.14!12.76!ZBTB20;;chr19:21512202..21512225,-!p1@ZNF708!1.13!64.36!ZNF708;;chr3:114343768..114343822,-!p1@ZBTB20!1.13!54.33!ZBTB20;;chr2:177053386..177053402,+!p1@HOXD1!1.13!12.61!HOXD1;;chr19:38085768..38085821,+!p1@ZNF540!1.12!18.20!ZNF540;;chr14:33403881..33403924,+!p1@NPAS3!1.12!12.33!NPAS3;;chr21:39870339..39870443,-!p1@ERG!1.12!12.04!ERG;;chr7:50344289..50344323,+!p1@IKZF1!1.11!11.75!IKZF1;;chr3:187463179..187463201,-!p2@BCL6!1.10!48.45!BCL6;;chr6:41701557..41701578,-!p3@TFEB!1.10!11.47!TFEB;;chr19:53636125..53636178,-!p1@ZNF415!1.09!31.96!ZNF415;;chr16:79634595..79634620,-!p2@MAF!1.09!20.93!MAF;;chr11:113930291..113930339,+!p2@ZBTB16!1.09!18.78!ZBTB16;;chr21:34442584..34442587,+!p3@OLIG1!1.09!11.32!OLIG1;;chr4:26344778..26344807,+!p8@RBPJ!1.09!11.32!RBPJ;;chr2:95963120..95963136,+!p2@KCNIP3!1.09!11.18!KCNIP3;;chr6:126112074..126112144,+!p1@NCOA7!1.08!148.93!NCOA7;;chr2:145275982..145276003,-!p7@ZEB2!1.07!10.75!ZEB2;;chr19:46800289..46800327,+!p2@HIF3A!1.07!10.75!HIF3A;;chr17:38219209..38219230,+!p1@THRA!1.06!137.46!THRA;;chr14:73360799..73360817,-!p1@DPF3!1.06!36.98!DPF3;;chr11:113930401..113930422,+!p3@ZBTB16!1.06!10.61!ZBTB16;;chr16:67198683..67198698,+!p2@HSF4!1.06!10.46!HSF4;;chr6:41701581..41701613,-!p2@TFEB!1.06!10.46!TFEB;;chr6:126070769..126070801,+!p1@HEY2!1.05!11.75!HEY2;;chr8:53322384..53322393,-!p7@ST18!1.05!10.18!ST18;;chr18:52989031..52989079,-!p2@TCF4!1.03!23.08!TCF4;;chr15:42749722..42749739,-!p2@ZFP106!1.03!17.63!ZFP106;;chr2:166326200..166326216,+!p1@CSRNP3!1.03!14.33!CSRNP3;;chr7:28725740..28725778,+!p1@CREB5!1.01!83.14!CREB5;;chr17:17726907..17726958,-!p2@SREBF1!1.01!58.91!SREBF1;;chr11:47400062..47400077,-!p2@SPI1!1.01!9.32!SPI1;;chr12:26277798..26277809,-!p5@BHLHE41!1.01!9.17!BHLHE41;;chr20:21494684..21494708,-!p1@NKX2-2!1.01!9.17!NKX2-2;;chr18:6414884..6414942,-!p1@L3MBTL4!1.00!11.47!L3MBTL4;;chr3:147127142..147127168,+!p1@ZIC1!1.00!8.89!ZIC1;;chr10:48359344..48359376,+!p2@ZNF488!0.98!8.60!ZNF488;;chr14:33403648..33403710,+!p3@NPAS3!0.98!8.60!NPAS3;;chr7:64023441..64023462,-!p1@ZNF680!0.97!68.09!ZNF680;;chr9:14314946..14314983,-!p8@NFIB!0.97!8.31!NFIB;;chrX:70315688..70315709,+!p1@FOXO4!0.96!19.49!FOXO4;;chr18:47814186..47814232,-!p2@CXXC1!0.96!17.20!CXXC1;;chr10:111987079..111987115,+!p3@MXI1!0.96!11.32!MXI1;;chr11:31832658..31832681,-!p1@PAX6!0.96!8.17!PAX6;;chr4:26344754..26344772,+!p10@RBPJ!0.96!8.17!RBPJ;;chr9:1050331..1050363,+!p1@DMRT2!0.96!8.17!DMRT2;;chr3:114819124..114819200,-!p3@ZBTB20!0.95!18.92!ZBTB20;;chr16:86544113..86544145,+!p1@FOXF1!0.95!10.03!FOXF1;;chr6:41701898..41701939,-!p5@TFEB!0.95!7.88!TFEB;;chr11:8102846..8102892,+!p1@TUB!0.94!11.04!TUB;;chr1:61924375..61924380,+!p6@NFIA!0.94!11.04!NFIA;;chr1:170632285..170632309,+!p1@PRRX1!0.94!8.74!PRRX1;;chr17:53342311..53342400,+!p1@HLF!0.93!8.60!HLF;;chr10:64134045..64134083,+!p3@ZNF365!0.93!7.60!ZNF365;;chr12:54778471..54778528,-!p1@ZNF385A!0.93!7.60!ZNF385A;;chr17:70117153..70117174,+!p1@SOX9!0.92!79.27!SOX9;;chr3:114866084..114866118,-!p2@ZBTB20!0.92!27.52!ZBTB20;;chr15:57210961..57211012,+!p3@TCF12!0.92!24.08!TCF12;;chr5:124084493..124084524,-!p2@ZNF608!0.92!16.91!ZNF608;;chr8:80679993..80680011,-!p1@HEY1!0.92!10.75!HEY1;;chr16:79633894..79633954,-!p3@MAF!0.91!14.05!MAF;;chr12:125003087..125003141,-!p4@NCOR2!0.91!9.32!NCOR2;;chr5:71803177..71803255,-!p1@ZNF366!0.91!7.17!ZNF366;;chr7:50343634..50343717,+!p2@IKZF1!0.91!7.17!IKZF1;;chr5:92918919..92918942,+!p1@NR2F1!0.90!32.11!NR2F1;;chr15:57511609..57511651,+!p2@TCF12!0.90!11.90!TCF12;;chr20:2673383..2673441,+!p1@EBF4!0.90!11.18!EBF4;;chr19:22398550..22398579,-!p@chr19:22398550..22398579,-!0.90!6.88!ZNF676;;chr5:76383017..76383068,-!p1@ZBED3!0.89!25.80!ZBED3;;chr9:73029219..73029289,-!p2@KLF9!0.89!21.50!KLF9;;chr2:74229812..74229867,+!p1@TET3!0.89!17.49!TET3;;chr15:41913690..41913753,+!p2@MGA!0.89!17.06!MGA;;chr7:86781858..86781879,+!p3@DMTF1!0.89!11.18!DMTF1;;chr7:128577972..128578047,+!p1@IRF5!0.89!10.89!IRF5;;chr16:4323246..4323299,-!p5@TFAP4!0.89!6.74!TFAP4;;chr19:37096139..37096170,-!p2@ZNF529!0.88!19.21!ZNF529;;chr17:7492684..7492778,-!p2@SOX15!0.88!14.48!SOX15;;chr19:57183114..57183145,-!p1@ZNF835!0.88!7.45!ZNF835;;chr11:34654104..34654118,+!p5@EHF!0.88!6.59!EHF;;chr19:13134457..13134462,+!p5@NFIX!0.87!11.90!NFIX;;chr5:178368186..178368238,+!p1@ZNF454!0.87!11.75!ZNF454;;chrX:107018969..107019024,-!p6@TSC22D3!0.87!9.03!TSC22D3;;chr8:30890810..30890880,-!p1@PURG!0.87!6.45!PURG;;chr7:28448965..28448994,+!p2@CREB5!0.86!23.08!CREB5;;chr3:52001396..52001425,-!p4@PCBP4!0.86!11.47!PCBP4;;chr20:62680984..62680999,-!p1@SOX18!0.86!8.46!SOX18;;chr9:77112244..77112262,+!p1@RORB!0.86!7.02!RORB;;chr10:111985777..111985788,+!p4@MXI1!0.86!6.16!MXI1;;chr5:172483347..172483407,+!p1@C5orf41!0.85!48.88!CREBRF;;chr3:52001426..52001447,-!p3@PCBP4!0.85!17.92!PCBP4;;chr5:2751762..2751784,-!p1@IRX2!0.85!6.02!IRX2;;chr5:88178983..88179012,-!p1@MEF2C!0.84!49.17!MEF2C;;chr19:11959532..11959593,+!p1@ZNF439!0.84!23.94!ZNF439;;chr20:51588873..51588953,+!p1@TSHZ2!0.84!8.03!TSHZ2;;chr5:124082322..124082364,-!p1@ZNF608!0.83!15.62!ZNF608;;chr19:57019215..57019250,+!p1@ZNF471!0.83!9.03!ZNF471;;chr1:47697539..47697573,-!p3@TAL1!0.83!5.73!TAL1;;chr6:15401104..15401166,+!p5@JARID2!0.83!5.73!JARID2;;chr8:10588010..10588030,-!p1@SOX7!0.83!5.73!SOX7;;chr2:105470599..105470610,+!p@chr2:105470599..105470610,+!0.83!5.73!POU3F3;;chr12:106976656..106976672,+!p4@RFX4!0.83!5.73!RFX4;;chr19:58446721..58446779,-!p1@ZNF418!0.82!16.34!ZNF418;;chr6:91006518..91006570,-!p1@BACH2!0.82!13.47!BACH2;;chr16:51185439..51185450,-!p8@SALL1!0.82!5.59!SALL1;;chr2:145277640..145277771,-!p1@ZEB2!0.81!78.26!ZEB2;;chrX:101186981..101187030,-!p1@ZMAT1!0.81!18.78!ZMAT1;;chr19:38085633..38085706,-!p1@ZNF571!0.81!15.19!ZNF571;;chrX:107019163..107019179,-!p7@TSC22D3!0.81!6.45!TSC22D3;;chr7:86781916..86781963,+!p2@DMTF1!0.80!24.94!DMTF1;;chr18:22932080..22932170,-!p1@ZNF521!0.80!24.22!ZNF521;;chr8:77593474..77593612,+!p1@ZFHX4!0.80!24.08!ZFHX4;;chr7:64023410..64023428,-!p2@ZNF680!0.80!8.60!ZNF680;;chr7:6655225..6655279,+!p1@ENST00000457543!0.80!8.31!ZNF853;;chr18:53068911..53068935,-!p4@TCF4!0.80!6.02!TCF4;;chr12:24102576..24102623,-!p2@SOX5!0.80!5.30!SOX5;;chr10:38265517..38265591,-!p1@ZNF25!0.79!21.64!ZNF25;;chr19:9879350..9879419,-!p2@ZNF846!0.79!11.75!ZNF846;;chr19:13213662..13213686,-!p1@LYL1!0.79!7.88!LYL1;;chr17:41277479..41277510,-!p5@BRCA1!0.79!7.45!BRCA1;;chr18:56530756..56530774,+!p6@ZNF532!0.79!7.02!ZNF532;;chr12:24715376..24715432,-!p1@SOX5!0.79!6.74!SOX5;;chr1:61548118..61548129,+!p9@NFIA!0.79!5.88!NFIA;;chr12:26276197..26276214,-!p8@BHLHE41!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| |expression_enrichment_score=chr7:100065686..100065701,-!p2@TSC22D4!2.81!650.91!TSC22D4;;chr22:38380543..38380569,-!p1@SOX10!2.53!339.28!SOX10;;chr21:34442439..34442455,+!p1@OLIG1!2.45!277.65!OLIG1;;chr11:61520075..61520136,+!p1@C11orf9!2.33!437.62!C11orf9;;chr8:53322304..53322340,-!p1@ST18!2.29!193.08!ST18;;chr10:134599649..134599653,-!p1@NKX6-2!2.12!129.87!NKX6-2;;chr2:145277882..145277967,-!p3@ZEB2!1.93!141.19!ZEB2;;chr16:1031762..1031781,+!p1@SOX8!1.91!80.27!SOX8;;chr10:48355030..48355090,+!p1@ZNF488!1.87!93.17!ZNF488;;chr2:105470562..105470582,+!p@chr2:105470562..105470582,+!1.87!73.96!POU3F3;;chr8:53322347..53322378,-!p2@ST18!1.86!71.67!ST18;;chr21:34398234..34398250,+!p1@OLIG2!1.85!70.38!OLIG2;;chr3:181429704..181429722,+!p1@SOX2!1.81!64.22!SOX2;;chr12:26277817..26277863,-!p2@BHLHE41!1.80!82.71!BHLHE41;;chr12:26277956..26277980,-!p1@BHLHE41!1.74!184.33!BHLHE41;;chr21:34442540..34442560,+!p2@OLIG1!1.74!54.33!OLIG1;;chr11:113930425..113930471,+!p1@ZBTB16!1.71!71.96!ZBTB16;;chr19:46801639..46801699,+!p1@HIF3A!1.67!46.01!HIF3A;;chr11:47400078..47400106,-!p1@SPI1!1.60!38.42!SPI1;;chr3:126076242..126076257,-!p1@KLF15!1.59!47.30!KLF15;;chr4:81118647..81118666,+!p1@PRDM8!1.56!46.73!PRDM8;;chr16:85932760..85932775,+!p1@IRF8!1.56!35.40!IRF8;;chr19:57352087..57352102,-!p1@PEG3,p1@ZIM2!1.56!35.26!PEG3;;chr9:114287433..114287513,+!p1@ZNF483!1.54!84.14!ZNF483;;chr1:214161272..214161322,+!p1@PROX1!1.49!41.43!PROX1;;chr12:106976774..106976788,+!p1@RFX4!1.48!29.38!RFX4;;chr2:105470536..105470556,+!p@chr2:105470536..105470556,+!1.45!27.23!POU3F3;;chr19:13135386..13135435,+!p4@NFIX!1.44!26.52!NFIX;;chr12:106976678..106976708,+!p2@RFX4!1.41!24.51!RFX4;;chr15:80696703..80696754,+!p1@ARNT2!1.40!31.68!ARNT2;;chr12:54779511..54779577,-!p5@ZNF385A!1.37!22.22!ZNF385A;;chr3:181429741..181429767,+!p2@SOX2!1.35!21.64!SOX2;;chr16:79634624..79634642,-!p1@MAF!1.34!80.70!MAF;;chr19:30863271..30863338,+!p1@ZNF536!1.34!20.78!ZNF536;;chr16:51185172..51185197,-!p1@SALL1!1.32!20.07!SALL1;;chr3:126076264..126076305,-!p2@KLF15!1.31!26.80!KLF15;;chr2:178128250..178128293,-!p6@NFE2L2!1.30!47.02!NFE2L2;;chr7:115670804..115670825,-!p1@TFEC!1.30!18.78!TFEC;;chr19:21512144..21512191,-!p2@ZNF708!1.29!85.00!ZNF708;;chr7:63505799..63505904,+!p1@ZNF727!1.29!18.49!ZNF727;;chr12:26277929..26277955,-!p3@BHLHE41!1.28!25.37!BHLHE41;;chr6:28321971..28321995,-!p1@ZNF323!1.27!17.77!ZNF323;;chr16:51185318..51185348,-!p2@SALL1!1.27!17.49!SALL1;;chrX:2418949..2419024,-!p1@DHRSX,p1@ZBED1!1.25!16.91!ZBED1;;chr2:68592406..68592424,+!p1@PLEK!1.24!16.48!PLEK;;chr1:61548069..61548102,+!p3@NFIA!1.23!38.56!NFIA;;chr17:47439437..47439533,-!p1@ZNF652!1.22!124.28!ZNF652;;chr19:13135582..13135600,+!p3@NFIX!1.22!15.48!NFIX;;chr10:64134120..64134183,+!p1@ZNF365!1.21!18.49!ZNF365;;chr19:21512115..21512135,-!p3@ZNF708!1.20!30.53!ZNF708;;chr14:33408072..33408114,+!p2@NPAS3!1.19!17.34!NPAS3;;chr16:67198633..67198671,+!p1@HSF4!1.19!14.33!HSF4;;chr20:21494654..21494678,-!p2@NKX2-2!1.19!14.33!NKX2-2;;chr2:214016314..214016343,-!p2@IKZF2!1.18!23.65!IKZF2;;chr22:41763452..41763466,+!p2@TEF!1.17!13.76!TEF;;chr12:103351444..103351461,+!p1@ASCL1!1.17!13.76!ASCL1;;chr6:19837592..19837621,+!p1@ID4!1.16!82.56!ID4;;chr1:40105299..40105326,-!p1@HEYL!1.16!13.47!HEYL;;chr8:53322411..53322422,-!p6@ST18!1.16!13.33!ST18;;chr2:95963052..95963106,+!p1@KCNIP3!1.15!13.19!KCNIP3;;chr20:50159198..50159299,-!p1@NFATC2!1.14!18.63!NFATC2;;chr3:114343039..114343085,-!p8@ZBTB20!1.14!12.76!ZBTB20;;chr19:21512202..21512225,-!p1@ZNF708!1.13!64.36!ZNF708;;chr3:114343768..114343822,-!p1@ZBTB20!1.13!54.33!ZBTB20;;chr2:177053386..177053402,+!p1@HOXD1!1.13!12.61!HOXD1;;chr19:38085768..38085821,+!p1@ZNF540!1.12!18.20!ZNF540;;chr14:33403881..33403924,+!p1@NPAS3!1.12!12.33!NPAS3;;chr21:39870339..39870443,-!p1@ERG!1.12!12.04!ERG;;chr7:50344289..50344323,+!p1@IKZF1!1.11!11.75!IKZF1;;chr3:187463179..187463201,-!p2@BCL6!1.10!48.45!BCL6;;chr6:41701557..41701578,-!p3@TFEB!1.10!11.47!TFEB;;chr19:53636125..53636178,-!p1@ZNF415!1.09!31.96!ZNF415;;chr16:79634595..79634620,-!p2@MAF!1.09!20.93!MAF;;chr11:113930291..113930339,+!p2@ZBTB16!1.09!18.78!ZBTB16;;chr21:34442584..34442587,+!p3@OLIG1!1.09!11.32!OLIG1;;chr4:26344778..26344807,+!p8@RBPJ!1.09!11.32!RBPJ;;chr2:95963120..95963136,+!p2@KCNIP3!1.09!11.18!KCNIP3;;chr6:126112074..126112144,+!p1@NCOA7!1.08!148.93!NCOA7;;chr2:145275982..145276003,-!p7@ZEB2!1.07!10.75!ZEB2;;chr19:46800289..46800327,+!p2@HIF3A!1.07!10.75!HIF3A;;chr17:38219209..38219230,+!p1@THRA!1.06!137.46!THRA;;chr14:73360799..73360817,-!p1@DPF3!1.06!36.98!DPF3;;chr11:113930401..113930422,+!p3@ZBTB16!1.06!10.61!ZBTB16;;chr16:67198683..67198698,+!p2@HSF4!1.06!10.46!HSF4;;chr6:41701581..41701613,-!p2@TFEB!1.06!10.46!TFEB;;chr6:126070769..126070801,+!p1@HEY2!1.05!11.75!HEY2;;chr8:53322384..53322393,-!p7@ST18!1.05!10.18!ST18;;chr18:52989031..52989079,-!p2@TCF4!1.03!23.08!TCF4;;chr15:42749722..42749739,-!p2@ZFP106!1.03!17.63!ZFP106;;chr2:166326200..166326216,+!p1@CSRNP3!1.03!14.33!CSRNP3;;chr7:28725740..28725778,+!p1@CREB5!1.01!83.14!CREB5;;chr17:17726907..17726958,-!p2@SREBF1!1.01!58.91!SREBF1;;chr11:47400062..47400077,-!p2@SPI1!1.01!9.32!SPI1;;chr12:26277798..26277809,-!p5@BHLHE41!1.01!9.17!BHLHE41;;chr20:21494684..21494708,-!p1@NKX2-2!1.01!9.17!NKX2-2;;chr18:6414884..6414942,-!p1@L3MBTL4!1.00!11.47!L3MBTL4;;chr3:147127142..147127168,+!p1@ZIC1!1.00!8.89!ZIC1;;chr10:48359344..48359376,+!p2@ZNF488!0.98!8.60!ZNF488;;chr14:33403648..33403710,+!p3@NPAS3!0.98!8.60!NPAS3;;chr7:64023441..64023462,-!p1@ZNF680!0.97!68.09!ZNF680;;chr9:14314946..14314983,-!p8@NFIB!0.97!8.31!NFIB;;chrX:70315688..70315709,+!p1@FOXO4!0.96!19.49!FOXO4;;chr18:47814186..47814232,-!p2@CXXC1!0.96!17.20!CXXC1;;chr10:111987079..111987115,+!p3@MXI1!0.96!11.32!MXI1;;chr11:31832658..31832681,-!p1@PAX6!0.96!8.17!PAX6;;chr4:26344754..26344772,+!p10@RBPJ!0.96!8.17!RBPJ;;chr9:1050331..1050363,+!p1@DMRT2!0.96!8.17!DMRT2;;chr3:114819124..114819200,-!p3@ZBTB20!0.95!18.92!ZBTB20;;chr16:86544113..86544145,+!p1@FOXF1!0.95!10.03!FOXF1;;chr6:41701898..41701939,-!p5@TFEB!0.95!7.88!TFEB;;chr11:8102846..8102892,+!p1@TUB!0.94!11.04!TUB;;chr1:61924375..61924380,+!p6@NFIA!0.94!11.04!NFIA;;chr1:170632285..170632309,+!p1@PRRX1!0.94!8.74!PRRX1;;chr17:53342311..53342400,+!p1@HLF!0.93!8.60!HLF;;chr10:64134045..64134083,+!p3@ZNF365!0.93!7.60!ZNF365;;chr12:54778471..54778528,-!p1@ZNF385A!0.93!7.60!ZNF385A;;chr17:70117153..70117174,+!p1@SOX9!0.92!79.27!SOX9;;chr3:114866084..114866118,-!p2@ZBTB20!0.92!27.52!ZBTB20;;chr15:57210961..57211012,+!p3@TCF12!0.92!24.08!TCF12;;chr5:124084493..124084524,-!p2@ZNF608!0.92!16.91!ZNF608;;chr8:80679993..80680011,-!p1@HEY1!0.92!10.75!HEY1;;chr16:79633894..79633954,-!p3@MAF!0.91!14.05!MAF;;chr12:125003087..125003141,-!p4@NCOR2!0.91!9.32!NCOR2;;chr5:71803177..71803255,-!p1@ZNF366!0.91!7.17!ZNF366;;chr7:50343634..50343717,+!p2@IKZF1!0.91!7.17!IKZF1;;chr5:92918919..92918942,+!p1@NR2F1!0.90!32.11!NR2F1;;chr15:57511609..57511651,+!p2@TCF12!0.90!11.90!TCF12;;chr20:2673383..2673441,+!p1@EBF4!0.90!11.18!EBF4;;chr19:22398550..22398579,-!p@chr19:22398550..22398579,-!0.90!6.88!ZNF676;;chr5:76383017..76383068,-!p1@ZBED3!0.89!25.80!ZBED3;;chr9:73029219..73029289,-!p2@KLF9!0.89!21.50!KLF9;;chr2:74229812..74229867,+!p1@TET3!0.89!17.49!TET3;;chr15:41913690..41913753,+!p2@MGA!0.89!17.06!MGA;;chr7:86781858..86781879,+!p3@DMTF1!0.89!11.18!DMTF1;;chr7:128577972..128578047,+!p1@IRF5!0.89!10.89!IRF5;;chr16:4323246..4323299,-!p5@TFAP4!0.89!6.74!TFAP4;;chr19:37096139..37096170,-!p2@ZNF529!0.88!19.21!ZNF529;;chr17:7492684..7492778,-!p2@SOX15!0.88!14.48!SOX15;;chr19:57183114..57183145,-!p1@ZNF835!0.88!7.45!ZNF835;;chr11:34654104..34654118,+!p5@EHF!0.88!6.59!EHF;;chr19:13134457..13134462,+!p5@NFIX!0.87!11.90!NFIX;;chr5:178368186..178368238,+!p1@ZNF454!0.87!11.75!ZNF454;;chrX:107018969..107019024,-!p6@TSC22D3!0.87!9.03!TSC22D3;;chr8:30890810..30890880,-!p1@PURG!0.87!6.45!PURG;;chr7:28448965..28448994,+!p2@CREB5!0.86!23.08!CREB5;;chr3:52001396..52001425,-!p4@PCBP4!0.86!11.47!PCBP4;;chr20:62680984..62680999,-!p1@SOX18!0.86!8.46!SOX18;;chr9:77112244..77112262,+!p1@RORB!0.86!7.02!RORB;;chr10:111985777..111985788,+!p4@MXI1!0.86!6.16!MXI1;;chr5:172483347..172483407,+!p1@C5orf41!0.85!48.88!CREBRF;;chr3:52001426..52001447,-!p3@PCBP4!0.85!17.92!PCBP4;;chr5:2751762..2751784,-!p1@IRX2!0.85!6.02!IRX2;;chr5:88178983..88179012,-!p1@MEF2C!0.84!49.17!MEF2C;;chr19:11959532..11959593,+!p1@ZNF439!0.84!23.94!ZNF439;;chr20:51588873..51588953,+!p1@TSHZ2!0.84!8.03!TSHZ2;;chr5:124082322..124082364,-!p1@ZNF608!0.83!15.62!ZNF608;;chr19:57019215..57019250,+!p1@ZNF471!0.83!9.03!ZNF471;;chr1:47697539..47697573,-!p3@TAL1!0.83!5.73!TAL1;;chr6:15401104..15401166,+!p5@JARID2!0.83!5.73!JARID2;;chr8:10588010..10588030,-!p1@SOX7!0.83!5.73!SOX7;;chr2:105470599..105470610,+!p@chr2:105470599..105470610,+!0.83!5.73!POU3F3;;chr12:106976656..106976672,+!p4@RFX4!0.83!5.73!RFX4;;chr19:58446721..58446779,-!p1@ZNF418!0.82!16.34!ZNF418;;chr6:91006518..91006570,-!p1@BACH2!0.82!13.47!BACH2;;chr16:51185439..51185450,-!p8@SALL1!0.82!5.59!SALL1;;chr2:145277640..145277771,-!p1@ZEB2!0.81!78.26!ZEB2;;chrX:101186981..101187030,-!p1@ZMAT1!0.81!18.78!ZMAT1;;chr19:38085633..38085706,-!p1@ZNF571!0.81!15.19!ZNF571;;chrX:107019163..107019179,-!p7@TSC22D3!0.81!6.45!TSC22D3;;chr7:86781916..86781963,+!p2@DMTF1!0.80!24.94!DMTF1;;chr18:22932080..22932170,-!p1@ZNF521!0.80!24.22!ZNF521;;chr8:77593474..77593612,+!p1@ZFHX4!0.80!24.08!ZFHX4;;chr7:64023410..64023428,-!p2@ZNF680!0.80!8.60!ZNF680;;chr7:6655225..6655279,+!p1@ENST00000457543!0.80!8.31!ZNF853;;chr18:53068911..53068935,-!p4@TCF4!0.80!6.02!TCF4;;chr12:24102576..24102623,-!p2@SOX5!0.80!5.30!SOX5;;chr10:38265517..38265591,-!p1@ZNF25!0.79!21.64!ZNF25;;chr19:9879350..9879419,-!p2@ZNF846!0.79!11.75!ZNF846;;chr19:13213662..13213686,-!p1@LYL1!0.79!7.88!LYL1;;chr17:41277479..41277510,-!p5@BRCA1!0.79!7.45!BRCA1;;chr18:56530756..56530774,+!p6@ZNF532!0.79!7.02!ZNF532;;chr12:24715376..24715432,-!p1@SOX5!0.79!6.74!SOX5;;chr1:61548118..61548129,+!p9@NFIA!0.79!5.88!NFIA;;chr12:26276197..26276214,-!p8@BHLHE41!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| ||
|fantom_cat=http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0000454;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0000955;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0001016;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0001890;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0001893;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0002038;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0002308;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0003528;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0009663 | |||
|ffid_belonging_in_development=UBERON:0002532,UBERON:0006601,UBERON:0010316 | |||
|fonse_cell_line= | |fonse_cell_line= | ||
|fonse_cell_line_closure= | |fonse_cell_line_closure= | ||
| Line 36: | Line 45: | ||
|fonse_treatment_closure= | |fonse_treatment_closure= | ||
|has_quality= | |has_quality= | ||
|hg19bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.tissue.hCAGE/substantia%2520nigra%252c%2520adult%252c%2520donor10252.CNhs12318.10158-103A5.hg19.nobarcode.bam | |||
|hg19ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.tissue.hCAGE/substantia%2520nigra%252c%2520adult%252c%2520donor10252.CNhs12318.10158-103A5.hg19.ctss.bed.gz | |||
|hg19fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.tissue.hCAGE/substantia%2520nigra%252c%2520adult%252c%2520donor10252.CNhs12318.10158-103A5.hg19.nobarcode.rdna.fa.gz | |||
|hg38bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.tissue.hCAGE/substantia%2520nigra%252c%2520adult%252c%2520donor10252.CNhs12318.10158-103A5.hg38.nobarcode.bam | |||
|hg38ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.tissue.hCAGE/substantia%2520nigra%252c%2520adult%252c%2520donor10252.CNhs12318.10158-103A5.hg38.nobarcode.ctss.bed.gz | |||
|id=FF:10158-103A5 | |id=FF:10158-103A5 | ||
|is_a=EFO:0002091;;FF:0000002;;FF:0010158 | |is_a=EFO:0002091;;FF:0000002;;FF:0010158 | ||
|is_obsolete= | |is_obsolete= | ||
|library_id=CNhs12318 | |||
|library_id_phase_based=2:CNhs12318 | |||
|microRNAs= | |||
|microRNAs_nn= | |||
|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/human#cage;sample;10158 | |||
|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/human#cage;sample;10158 | |||
|name=substantia nigra, adult, donor10252 | |name=substantia nigra, adult, donor10252 | ||
|namespace=FANTOM5 | |namespace=FANTOM5 | ||
| Line 44: | Line 64: | ||
|profile_cagescan=NCig10029,,, | |profile_cagescan=NCig10029,,, | ||
|profile_hcage=CNhs12318,LSID913,release011,COMPLETED | |profile_hcage=CNhs12318,LSID913,release011,COMPLETED | ||
|profile_rnaseq= | |profile_rnaseq= | ||
|profile_srnaseq=,,, | |profile_srnaseq=,,, | ||
|refex=http://refex.dbcls.jp/genelist.php?lang | |||
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| |||
|rna_box=103 | |rna_box=103 | ||
|rna_catalog_number= | |rna_catalog_number= | ||
| Line 58: | Line 81: | ||
|rna_tube_id=103A5 | |rna_tube_id=103A5 | ||
|rna_weight_ug=33.85725 | |rna_weight_ug=33.85725 | ||
|rnaseq_library_id=RDhi10096 | |||
|sample_age=76 | |sample_age=76 | ||
|sample_category=tissues | |||
|sample_cell_catalog=NA | |sample_cell_catalog=NA | ||
|sample_cell_line= | |sample_cell_line= | ||
| Line 80: | Line 105: | ||
|top_motifs=SOX2:3.85610762072;SOX5:3.52919316876;GATA4:3.3376695912;NFIX:3.13282808162;SOX{8,9,10}:3.1056781248;FOXP1:2.90297030849;NKX3-2:2.50740832489;NR3C1:2.43125481599;AR:2.37718767125;TOPORS:2.36995194371;FOXO1,3,4:2.34961395178;BPTF:2.34746946083;POU6F1:2.24781869623;EP300:2.09220713943;RREB1:2.00946677587;FOXD3:2.00274731465;CUX2:1.97064252262;ZFP161:1.91885672305;ZBTB16:1.82118265612;XBP1:1.77867354126;SOX17:1.7673074702;HOX{A6,A7,B6,B7}:1.75934525525;MYFfamily:1.71503955764;FOXQ1:1.70431603023;TGIF1:1.68745229643;FOXP3:1.68381088216;ZNF384:1.63453235218;FOX{D1,D2}:1.61190673323;MED-1{core}:1.58746424603;RBPJ:1.57169808804;RFX2..5_RFXANK_RFXAP:1.5623922071;HIC1:1.53299892477;NHLH1,2:1.51787911681;REST:1.50033799233;MYBL2:1.49127210415;PAX6:1.48710673602;ATF2:1.48019991835;PATZ1:1.47188769689;GTF2I:1.4690835201;ARID5B:1.45841341072;LMO2:1.36103851834;PITX1..3:1.35792383885;ZBTB6:1.35454289761;TLX2:1.33345833319;FOX{I1,J2}:1.32450922202;SREBF1,2:1.31788841255;PRDM1:1.25226724706;MAFB:1.24263723933;NKX6-1,2:1.21625505036;OCT4_SOX2{dimer}:1.21577934921;HBP1_HMGB_SSRP1_UBTF:1.21346514076;MAZ:1.19010021713;NKX2-2,8:1.17528160805;RXR{A,B,G}_{NR1H2,PPAR}dimers:1.17219668827;PAX4:1.16819211582;TFAP2B:1.16194190178;SP1:1.14466985464;STAT2,4,6:1.13154898652;ZNF143:1.12911893637;FOX{F1,F2,J1}:1.10381225965;MTF1:1.08547359472;T:1.07537280138;IKZF2:1.07210221904;NRF1:1.05791142538;MZF1:1.03250308516;STAT1,3:1.03072699151;TLX1..3_NFIC{dimer}:1.00707419614;MTE{core}:0.990833678447;TFAP2{A,C}:0.975445221437;DBP:0.964315897569;SPZ1:0.915359020717;POU3F1..4:0.911583622974;FOXM1:0.90369164041;SMAD1..7,9:0.884129477308;KLF4:0.845458713952;PRRX1,2:0.7773404609;EGR1..3:0.773052348494;PDX1:0.749053239153;ALX1:0.659223406827;IRF7:0.650721544067;NANOG:0.648598870388;ZNF423:0.625970247681;LEF1_TCF7_TCF7L1,2:0.622803152904;JUN:0.585964328607;BREu{core}:0.573305457909;GTF2A1,2:0.565324593553;POU5F1:0.564466362662;CDX1,2,4:0.563228378254;RFX1:0.491712982251;ZIC1..3:0.489442951937;ONECUT1,2:0.461784764276;EBF1:0.399241987057;PAX5:0.39400407068;HSF1,2:0.371058686067;AIRE:0.340646446486;FOXA2:0.330600582191;CREB1:0.325212787347;GFI1B:0.29854600587;HOX{A4,D4}:0.296191377074;TFCP2:0.286516448438;NFY{A,B,C}:0.279271378369;NKX3-1:0.276575710662;GCM1,2:0.256157294486;IRF1,2:0.217058667585;CDC5L:0.206926437157;HMX1:0.196338842965;TEF:0.191608072079;ESRRA:0.17342539056;CRX:0.164549862054;YY1:0.114652621232;NFATC1..3:0.102151106446;GZF1:0.101150971989;POU1F1:0.0981228676204;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:0.0654976296068;HOXA9_MEIS1:0.0643161058587;NKX2-1,4:0.0443017235849;HAND1,2:0.0416379795464;TFDP1:0.0338778596889;EVI1:-0.0312060859588;FOXL1:-0.034686622407;ZNF238:-0.0569428730272;HMGA1,2:-0.0920766921408;PAX2:-0.100294688744;GFI1:-0.104483097525;NFIL3:-0.120247967432;HNF4A_NR2F1,2:-0.121751696768;ALX4:-0.155827282718;SPI1:-0.187894092122;ATF5_CREB3:-0.188287858187;VSX1,2:-0.194394786034;DMAP1_NCOR{1,2}_SMARC:-0.196071961855;RXR{A,B,G}:-0.222169105319;NR5A1,2:-0.224164160933;RORA:-0.245389717941;UFEwm:-0.247665867583;MEF2{A,B,C,D}:-0.253192300289;ETS1,2:-0.259164505615;TFAP4:-0.265973072494;HIF1A:-0.277966266255;SPIB:-0.279143161425;FOXN1:-0.332441719492;ELF1,2,4:-0.370526473009;NANOG{mouse}:-0.385895954174;XCPE1{core}:-0.396851247441;PBX1:-0.399100703423;AHR_ARNT_ARNT2:-0.417839128657;CEBPA,B_DDIT3:-0.417976243416;bHLH_family:-0.421041005946;NFE2L2:-0.43774257864;IKZF1:-0.461429646369;TP53:-0.473600879654;LHX3,4:-0.487518845126;ZEB1:-0.501220822292;GATA6:-0.536127539638;ATF6:-0.548015927352;NR6A1:-0.56659099454;NFE2L1:-0.596463241955;ATF4:-0.607428104506;MYOD1:-0.674867492033;NFE2:-0.676095193845;ELK1,4_GABP{A,B1}:-0.694249413844;HLF:-0.729733582088;TEAD1:-0.745723422309;TAL1_TCF{3,4,12}:-0.75371486531;NKX2-3_NKX2-5:-0.764649717003;TBP:-0.78291950726;NR1H4:-0.844416624045;HNF1A:-0.849791719591;SNAI1..3:-0.893344943865;ADNP_IRX_SIX_ZHX:-0.899238172319;TBX4,5:-0.916123236367;NFKB1_REL_RELA:-0.982473421663;FOSL2:-1.01780430671;E2F1..5:-1.02007202174;MYB:-1.03332543707;RUNX1..3:-1.03994272886;BACH2:-1.07259477106;SRF:-1.07337765897;FOS_FOS{B,L1}_JUN{B,D}:-1.09896313639;STAT5{A,B}:-1.3213587824;PAX1,9:-1.37313906692;ESR1:-1.37539714085;PAX8:-1.41716830294;POU2F1..3:-1.44349690846;RXRA_VDR{dimer}:-1.48908057489;HES1:-1.51626896398;PAX3,7:-1.58444353231;ZNF148:-1.61177514066;GLI1..3:-1.63986461519;EN1,2:-1.69881416792;PPARG:-2.39880001041;HOX{A5,B5}:-2.98038280024 | |top_motifs=SOX2:3.85610762072;SOX5:3.52919316876;GATA4:3.3376695912;NFIX:3.13282808162;SOX{8,9,10}:3.1056781248;FOXP1:2.90297030849;NKX3-2:2.50740832489;NR3C1:2.43125481599;AR:2.37718767125;TOPORS:2.36995194371;FOXO1,3,4:2.34961395178;BPTF:2.34746946083;POU6F1:2.24781869623;EP300:2.09220713943;RREB1:2.00946677587;FOXD3:2.00274731465;CUX2:1.97064252262;ZFP161:1.91885672305;ZBTB16:1.82118265612;XBP1:1.77867354126;SOX17:1.7673074702;HOX{A6,A7,B6,B7}:1.75934525525;MYFfamily:1.71503955764;FOXQ1:1.70431603023;TGIF1:1.68745229643;FOXP3:1.68381088216;ZNF384:1.63453235218;FOX{D1,D2}:1.61190673323;MED-1{core}:1.58746424603;RBPJ:1.57169808804;RFX2..5_RFXANK_RFXAP:1.5623922071;HIC1:1.53299892477;NHLH1,2:1.51787911681;REST:1.50033799233;MYBL2:1.49127210415;PAX6:1.48710673602;ATF2:1.48019991835;PATZ1:1.47188769689;GTF2I:1.4690835201;ARID5B:1.45841341072;LMO2:1.36103851834;PITX1..3:1.35792383885;ZBTB6:1.35454289761;TLX2:1.33345833319;FOX{I1,J2}:1.32450922202;SREBF1,2:1.31788841255;PRDM1:1.25226724706;MAFB:1.24263723933;NKX6-1,2:1.21625505036;OCT4_SOX2{dimer}:1.21577934921;HBP1_HMGB_SSRP1_UBTF:1.21346514076;MAZ:1.19010021713;NKX2-2,8:1.17528160805;RXR{A,B,G}_{NR1H2,PPAR}dimers:1.17219668827;PAX4:1.16819211582;TFAP2B:1.16194190178;SP1:1.14466985464;STAT2,4,6:1.13154898652;ZNF143:1.12911893637;FOX{F1,F2,J1}:1.10381225965;MTF1:1.08547359472;T:1.07537280138;IKZF2:1.07210221904;NRF1:1.05791142538;MZF1:1.03250308516;STAT1,3:1.03072699151;TLX1..3_NFIC{dimer}:1.00707419614;MTE{core}:0.990833678447;TFAP2{A,C}:0.975445221437;DBP:0.964315897569;SPZ1:0.915359020717;POU3F1..4:0.911583622974;FOXM1:0.90369164041;SMAD1..7,9:0.884129477308;KLF4:0.845458713952;PRRX1,2:0.7773404609;EGR1..3:0.773052348494;PDX1:0.749053239153;ALX1:0.659223406827;IRF7:0.650721544067;NANOG:0.648598870388;ZNF423:0.625970247681;LEF1_TCF7_TCF7L1,2:0.622803152904;JUN:0.585964328607;BREu{core}:0.573305457909;GTF2A1,2:0.565324593553;POU5F1:0.564466362662;CDX1,2,4:0.563228378254;RFX1:0.491712982251;ZIC1..3:0.489442951937;ONECUT1,2:0.461784764276;EBF1:0.399241987057;PAX5:0.39400407068;HSF1,2:0.371058686067;AIRE:0.340646446486;FOXA2:0.330600582191;CREB1:0.325212787347;GFI1B:0.29854600587;HOX{A4,D4}:0.296191377074;TFCP2:0.286516448438;NFY{A,B,C}:0.279271378369;NKX3-1:0.276575710662;GCM1,2:0.256157294486;IRF1,2:0.217058667585;CDC5L:0.206926437157;HMX1:0.196338842965;TEF:0.191608072079;ESRRA:0.17342539056;CRX:0.164549862054;YY1:0.114652621232;NFATC1..3:0.102151106446;GZF1:0.101150971989;POU1F1:0.0981228676204;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:0.0654976296068;HOXA9_MEIS1:0.0643161058587;NKX2-1,4:0.0443017235849;HAND1,2:0.0416379795464;TFDP1:0.0338778596889;EVI1:-0.0312060859588;FOXL1:-0.034686622407;ZNF238:-0.0569428730272;HMGA1,2:-0.0920766921408;PAX2:-0.100294688744;GFI1:-0.104483097525;NFIL3:-0.120247967432;HNF4A_NR2F1,2:-0.121751696768;ALX4:-0.155827282718;SPI1:-0.187894092122;ATF5_CREB3:-0.188287858187;VSX1,2:-0.194394786034;DMAP1_NCOR{1,2}_SMARC:-0.196071961855;RXR{A,B,G}:-0.222169105319;NR5A1,2:-0.224164160933;RORA:-0.245389717941;UFEwm:-0.247665867583;MEF2{A,B,C,D}:-0.253192300289;ETS1,2:-0.259164505615;TFAP4:-0.265973072494;HIF1A:-0.277966266255;SPIB:-0.279143161425;FOXN1:-0.332441719492;ELF1,2,4:-0.370526473009;NANOG{mouse}:-0.385895954174;XCPE1{core}:-0.396851247441;PBX1:-0.399100703423;AHR_ARNT_ARNT2:-0.417839128657;CEBPA,B_DDIT3:-0.417976243416;bHLH_family:-0.421041005946;NFE2L2:-0.43774257864;IKZF1:-0.461429646369;TP53:-0.473600879654;LHX3,4:-0.487518845126;ZEB1:-0.501220822292;GATA6:-0.536127539638;ATF6:-0.548015927352;NR6A1:-0.56659099454;NFE2L1:-0.596463241955;ATF4:-0.607428104506;MYOD1:-0.674867492033;NFE2:-0.676095193845;ELK1,4_GABP{A,B1}:-0.694249413844;HLF:-0.729733582088;TEAD1:-0.745723422309;TAL1_TCF{3,4,12}:-0.75371486531;NKX2-3_NKX2-5:-0.764649717003;TBP:-0.78291950726;NR1H4:-0.844416624045;HNF1A:-0.849791719591;SNAI1..3:-0.893344943865;ADNP_IRX_SIX_ZHX:-0.899238172319;TBX4,5:-0.916123236367;NFKB1_REL_RELA:-0.982473421663;FOSL2:-1.01780430671;E2F1..5:-1.02007202174;MYB:-1.03332543707;RUNX1..3:-1.03994272886;BACH2:-1.07259477106;SRF:-1.07337765897;FOS_FOS{B,L1}_JUN{B,D}:-1.09896313639;STAT5{A,B}:-1.3213587824;PAX1,9:-1.37313906692;ESR1:-1.37539714085;PAX8:-1.41716830294;POU2F1..3:-1.44349690846;RXRA_VDR{dimer}:-1.48908057489;HES1:-1.51626896398;PAX3,7:-1.58444353231;ZNF148:-1.61177514066;GLI1..3:-1.63986461519;EN1,2:-1.69881416792;PPARG:-2.39880001041;HOX{A5,B5}:-2.98038280024 | ||
|xref= | |xref= | ||
|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_human;search_select_hide=table111:FF:10158-103A5;search_select_hide=table117:FF:10158-103A5 | |||
}} | }} | ||
Latest revision as of 12:23, 3 June 2020
| Name: | substantia nigra, adult, donor10252 |
|---|---|
| Species: | Human (Homo sapiens) |
| Library ID: | CNhs12318 |
| Sample type: | tissues |
| Genomic View: | UCSC |
| RefEX: | Specific genes |
| FANTOM CAT: | 1, 2, 3, 4, 5, 6, 7, 8, 9 |
| CAGEd-oPOSSUM: | link |
| ZENBU report : | link |
| Additional information | ||||||||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Sample information
RNA information
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| CAGE Accession numbers | ||||||||||||||||||||||||||||||||||||||||||||||
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| Download raw sequence, BAM & CTSS | ||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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| HumanCAGEScan Download raw sequence, BAM & CTSS | ||||||||||||||||||
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| RNA-Seq Accession numbers | ||||||||||||||||||||||||||||||||
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Relative expression to median (log10)
Transcription factors with enriched expression in this sampleRanked list of transcription factor promoter expression in this sample relative to the median expression in the FANTOM5 collection is shown. Value is log10 transformed.
Co-expression clusters with enriched expression in this sampleRanked list of co-expression cluster expression in this sample relative to the median expression in the FANTOM5 collection is shown. Value is log10 transformed. <br>Analyst:NA <br><br>link to dataset.<br>data
Repeat families with enriched expression in this sample<b>Summary:</b>Ranked list of repeat family expression in this sample relative tothe median expression in the FANTOM5 collection is shown. Value is log10transformed.<br><b>Analyst:</b>NA<br><br>link to dataset.<br>data
TFBS(DNA)motifs over-represented in proximal region of promoters active in this sample
JASPAR motifs<b>Summary:</b>Association of JASPAR motif to the promoter expression in thissample. Pearson's correlation between the number of TFBSs estimated byusing the position-weight matrix for each promoter and its expression isexpressed as Z-score by taking the ones based on random position-weightmatrix, and the tail probability of the normal distribution correspondingto the Z-score is taken as the resulting P-value. Lower P-value indicatesmore (non-random) association of the motif to promoter expression<br><b>Analyst:</b> Michiel de Hoon <br><br><br>link to dataset.<br>data
library id: CNhs12318
FANTOM5 phase1 novel unique motifs<b>Summary:</b>Association of the 169 novel and unique motifs discovered in FANTOM5 phase1 in this sample. Among the de-novo motifs discovered by DMF, HOMER,ChIPMunk, and ScanAll, only novel motifs are selected after comparison with known motif sets, and their clustering based on MACRO-APE resulted in169 novel and unique motifs. Their association to the promoter expression is evaluated in the same way to the JASPAR motif above<br><b>Analyst:</b> Michiel de Hoon <br><br><br>link to dataset.<br>data
library id: CNhs12318
| Novel motif | Logo | P-value |
|---|---|---|
| 1 | 1 | 0.164 |
| 10 | 10 | 0.101 |
| 100 | 100 | 0.725 |
| 101 | 101 | 0.385 |
| 102 | 102 | 0.953 |
| 103 | 103 | 0.0171 |
| 104 | 104 | 0.0981 |
| 105 | 105 | 0.0978 |
| 106 | 106 | 0.0104 |
| 107 | 107 | 0.149 |
| 108 | 108 | 0.893 |
| 109 | 109 | 0.00121 |
| 11 | 11 | 0.0139 |
| 110 | 110 | 0.0653 |
| 111 | 111 | 0.5 |
| 112 | 112 | 0.257 |
| 113 | 113 | 0.0688 |
| 114 | 114 | 0.276 |
| 115 | 115 | 0.892 |
| 116 | 116 | 0.411 |
| 117 | 117 | 0.0324 |
| 118 | 118 | 0.413 |
| 119 | 119 | 0.644 |
| 12 | 12 | 0.211 |
| 120 | 120 | 0.166 |
| 121 | 121 | 0.467 |
| 122 | 122 | 0.737 |
| 123 | 123 | 0.0219 |
| 124 | 124 | 0.526 |
| 125 | 125 | 0.849 |
| 126 | 126 | 0.126 |
| 127 | 127 | 0.3 |
| 128 | 128 | 0.127 |
| 129 | 129 | 0.427 |
| 13 | 13 | 0.0091 |
| 130 | 130 | 0.112 |
| 131 | 131 | 0.021 |
| 132 | 132 | 0.261 |
| 133 | 133 | 0.192 |
| 134 | 134 | 0.383 |
| 135 | 135 | 0.265 |
| 136 | 136 | 0.00209 |
| 137 | 137 | 0.84 |
| 138 | 138 | 0.961 |
| 139 | 139 | 0.442 |
| 14 | 14 | 0.928 |
| 140 | 140 | 0.797 |
| 141 | 141 | 0.447 |
| 142 | 142 | 0.406 |
| 143 | 143 | 0.0238 |
| 144 | 144 | 0.53 |
| 145 | 145 | 0.596 |
| 146 | 146 | 0.567 |
| 147 | 147 | 0.773 |
| 148 | 148 | 0.859 |
| 149 | 149 | 0.125 |
| 15 | 15 | 0.0656 |
| 150 | 150 | 0.0729 |
| 151 | 151 | 0.933 |
| 152 | 152 | 0.0746 |
| 153 | 153 | 0.905 |
| 154 | 154 | 0.182 |
| 155 | 155 | 0.921 |
| 156 | 156 | 0.403 |
| 157 | 157 | 0.31 |
| 158 | 158 | 0.0858 |
| 159 | 159 | 0.00307 |
| 16 | 16 | 0.0297 |
| 160 | 160 | 0.224 |
| 161 | 161 | 0.301 |
| 162 | 162 | 0.703 |
| 163 | 163 | 0.578 |
| 164 | 164 | 0.0323 |
| 165 | 165 | 0.197 |
| 166 | 166 | 0.739 |
| 167 | 167 | 0.485 |
| 168 | 168 | 0.89 |
| 169 | 169 | 0.0579 |
| 17 | 17 | 0.0701 |
| 18 | 18 | 0.0376 |
| 19 | 19 | 0.479 |
| 2 | 2 | 0.781 |
| 20 | 20 | 0.321 |
| 21 | 21 | 0.058 |
| 22 | 22 | 0.276 |
| 23 | 23 | 0.324 |
| 24 | 24 | 0.0435 |
| 25 | 25 | 0.587 |
| 26 | 26 | 0.0635 |
| 27 | 27 | 0.336 |
| 28 | 28 | 0.921 |
| 29 | 29 | 0.00251 |
| 3 | 3 | 0.143 |
| 30 | 30 | 0.499 |
| 31 | 31 | 0.975 |
| 32 | 32 | 0.00856 |
| 33 | 33 | 0.0759 |
| 34 | 34 | 0.692 |
| 35 | 35 | 0.539 |
| 36 | 36 | 0.424 |
| 37 | 37 | 0.054 |
| 38 | 38 | 0.682 |
| 39 | 39 | 0.314 |
| 4 | 4 | 0.863 |
| 40 | 40 | 0.166 |
| 41 | 41 | 0.296 |
| 42 | 42 | 0.416 |
| 43 | 43 | 0.175 |
| 44 | 44 | 0.0848 |
| 45 | 45 | 0.59 |
| 46 | 46 | 0.0302 |
| 47 | 47 | 0.134 |
| 48 | 48 | 0.133 |
| 49 | 49 | 0.695 |
| 5 | 5 | 0.788 |
| 50 | 50 | 0.687 |
| 51 | 51 | 0.308 |
| 52 | 52 | 0.626 |
| 53 | 53 | 0.168 |
| 54 | 54 | 0.752 |
| 55 | 55 | 0.892 |
| 56 | 56 | 0.729 |
| 57 | 57 | 0.619 |
| 58 | 58 | 0.431 |
| 59 | 59 | 0.0481 |
| 6 | 6 | 0.494 |
| 60 | 60 | 0.115 |
| 61 | 61 | 0.237 |
| 62 | 62 | 0.191 |
| 63 | 63 | 0.666 |
| 64 | 64 | 0.132 |
| 65 | 65 | 0.355 |
| 66 | 66 | 0.0634 |
| 67 | 67 | 0.498 |
| 68 | 68 | 0.337 |
| 69 | 69 | 0.471 |
| 7 | 7 | 0.142 |
| 70 | 70 | 0.19 |
| 71 | 71 | 0.0122 |
| 72 | 72 | 0.159 |
| 73 | 73 | 0.0422 |
| 74 | 74 | 0.623 |
| 75 | 75 | 0.0218 |
| 76 | 76 | 0.342 |
| 77 | 77 | 0.123 |
| 78 | 78 | 0.00393 |
| 79 | 79 | 0.54 |
| 8 | 8 | 0.0669 |
| 80 | 80 | 0.325 |
| 81 | 81 | 0.632 |
| 82 | 82 | 0.789 |
| 83 | 83 | 0.0853 |
| 84 | 84 | 0.471 |
| 85 | 85 | 0.848 |
| 86 | 86 | 0.197 |
| 87 | 87 | 2.19812e-4 |
| 88 | 88 | 0.562 |
| 89 | 89 | 0.0771 |
| 9 | 9 | 0.265 |
| 90 | 90 | 0.366 |
| 91 | 91 | 0.677 |
| 92 | 92 | 0.573 |
| 93 | 93 | 0.884 |
| 94 | 94 | 0.273 |
| 95 | 95 | 0.02 |
| 96 | 96 | 0.547 |
| 97 | 97 | 0.771 |
| 98 | 98 | 0.237 |
| 99 | 99 | 0.566 |
de novo motifs identified by HOMER in promoters active in this sample<b>Summary:</b>The result of HOMER in this sample is shown.<br><b>Analyst:</b>NA <br>
library id: CNhs12318
FANTOM5 (FF) ontology
Direct parent terms
is_a relathionship
EFO:0002091 biological replicate
FF:0000002 in vivo cell sample
FF:0010158 human substantia nigra - adult donor sample
Ancestor terms (non development)<b>Summary:</b>Connected ontology terms with is_a, part_of or located_in relationship <br><b>Analyst:</b> Hideya Kawaji<br><br>link to source data<br>data
UBERON: Anatomy
0000468 (multi-cellular organism)
0007023 (adult organism)
0000955 (brain)
0002038 (substantia nigra)
0000479 (tissue)
0004121 (ectoderm-derived structure)
0000064 (organ part)
0010314 (structure with developmental contribution from neural crest)
0011216 (organ system subdivision)
0000062 (organ)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000481 (multi-tissue structure)
0000073 (regional part of nervous system)
0000477 (anatomical cluster)
0003528 (brain grey matter)
0002791 (regional part of telencephalon)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0009663 (telencephalic nucleus)
0002420 (basal ganglion)
0002616 (regional part of brain)
0002780 (regional part of forebrain)
0009661 (midbrain nucleus)
0000125 (neural nucleus)
0002950 (regional part of midbrain)
0002020 (gray matter)
0007245 (nuclear complex of neuraxis)
0010317 (germ layer / neural crest derived structure)
0002308 (nucleus of brain)
0010009 (aggregate regional part of brain)
0001017 (central nervous system)
0001016 (nervous system)
0001893 (telencephalon)
0001890 (forebrain)
0001891 (midbrain)
0010011 (collection of basal ganglia)
0000454 (cerebral subcortex)
FF: FANTOM5
0000102 (sample by type)
0000210 (human sample)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000001 (sample)
0000998 (adult tissue sample)
0000004 (tissue sample)
0010158 (human substantia nigra - adult donor sample)
Ancestor terms (development)<b>Summary:</b>Connected ontology terms with develops_from, derives_from or preceded_by relationship <br><b>Analyst:</b> Hideya Kawaji <br><br>link to source data<br>data
UBERON:0002532 (epiblast (generic))
UBERON:0006601 (presumptive ectoderm)
UBERON:0010316 (germ layer / neural crest)
