FF:11351-117H1: Difference between revisions
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{{f5samples | {{f5samples | ||
|DRA_sample_Accession=CAGE@SAMD00004896 | |||
|DRA_sample_Accession_RNASeq=sRNA-Seq@SAMD00004896 | |||
|accession_numbers=CAGE;DRX008339;DRR009211;DRZ000636;DRZ002021;DRZ011986;DRZ013371 | |||
|accession_numbers_RNASeq=sRNA-Seq;DRX037257;DRR041623;DRZ007265 | |||
|ancestors_in_anatomy_facet= | |ancestors_in_anatomy_facet= | ||
|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000548,CL:0000075,CL:0000066,CL:0002371,CL:0000325,CL:0000147,CL:0000710,CL:0000255,CL:0002077,CL:0000148,CL:0002567 | |ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000548,CL:0000075,CL:0000066,CL:0002371,CL:0000325,CL:0000147,CL:0000710,CL:0000255,CL:0002077,CL:0000148,CL:0002567 | ||
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|created_by= | |created_by= | ||
|creation_date= | |creation_date= | ||
|datafreeze_phase= | |data_phase=2 | ||
|datafreeze_phase=2 | |||
|def= | |def= | ||
|expression_enrichment_score=chr22:38380543..38380569,-!p1@SOX10!3.01!1026.82!SOX10;;chr3:69985734..69985749,+!p2@MITF!2.34!219.20!MITF;;chr6:391743..391759,+!p1@IRF4!2.31!202.79!IRF4;;chr6:10415276..10415341,-!p2@TFAP2A!2.30!240.30!TFAP2A;;chr19:3574330..3574393,+!p2@HMG20B!2.29!192.24!HMG20B;;chr2:223163706..223163730,-!p1@PAX3!2.19!153.55!PAX3;;chr6:10412600..10412637,-!p1@TFAP2A!2.06!182.86!TFAP2A;;chr19:3574157..3574180,+!p4@HMG20B!1.92!82.05!HMG20B;;chr15:42749722..42749739,-!p2@ZFP106!1.85!121.91!ZFP106;;chr19:3574400..3574430,+!p6@HMG20B!1.81!63.30!HMG20B;;chr6:10415484..10415508,-!p3@TFAP2A!1.80!62.13!TFAP2A;;chr17:59477233..59477263,+!p1@TBX2!1.64!128.94!TBX2;;chr8:72756637..72756664,-!p3@MSC!1.60!43.37!MSC;;chr2:239148671..239148686,-!p1@HES6!1.59!134.80!HES6;;chr17:59477275..59477286,+!p3@TBX2!1.59!50.40!TBX2;;chr12:26277817..26277863,-!p2@BHLHE41!1.56!46.89!BHLHE41;;chr6:10412392..10412409,-!p4@TFAP2A!1.50!35.17!TFAP2A;;chr1:25256756..25256774,-!p1@RUNX3!1.46!51.58!RUNX3;;chr6:10415263..10415274,-!p8@TFAP2A!1.39!23.44!TFAP2A;;chr6:10412576..10412599,-!p5@TFAP2A!1.37!22.27!TFAP2A;;chr11:125034640..125034655,+!p1@PKNOX2!1.32!19.93!PKNOX2;;chr8:72756267..72756296,-!p4@MSC!1.31!28.13!MSC;;chr19:3574468..3574478,+!p19@HMG20B!1.27!17.58!HMG20B;;chr20:55204351..55204377,+!p1@TFAP2C!1.25!21.10!TFAP2C;;chr17:46806067..46806097,-!p1@HOXB13!1.24!16.41!HOXB13;;chr11:125034605..125034636,+!p2@PKNOX2!1.21!15.24!PKNOX2;;chr20:50179368..50179392,-!p2@NFATC2!1.19!18.75!NFATC2;;chr9:102584262..102584276,+!p1@NR4A3!1.15!29.30!NR4A3;;chr3:185826855..185826911,-!p1@ETV5!1.14!348.14!ETV5;;chr16:67198683..67198698,+!p2@HSF4!1.14!12.89!HSF4;;chr17:46806035..46806059,-!p2@HOXB13!1.14!12.89!HOXB13;;chr12:54410664..54410684,+!p1@HOXC4,p1@HOXC5,p1@HOXC6!1.14!12.89!HOXC5;;chr12:26277956..26277980,-!p1@BHLHE41!1.10!42.20!BHLHE41;;chr17:59477197..59477212,+!p2@TBX2!1.10!19.93!TBX2;;chr2:177053386..177053402,+!p1@HOXD1!1.10!11.72!HOXD1;;chr1:63788229..63788250,+!p1@FOXD3!1.10!11.72!FOXD3;;chr5:321810..321877,+!p1@AHRR!1.09!36.34!AHRR;;chr6:10412477..10412490,-!p10@TFAP2A!1.06!10.55!TFAP2A;;chr19:3576938..3576962,+!p9@HMG20B!1.06!10.55!HMG20B;;chr22:41721853..41721874,+!p6@ZC3H7B!1.06!10.55!ZC3H7B;;chr8:128748308..128748324,+!p2@MYC!1.03!275.46!MYC;;chr8:72756667..72756736,-!p2@MSC!1.03!15.24!MSC;;chr12:54447599..54447630,+!p3@HOXC4!1.02!11.72!HOXC4;;chr2:145271342..145271377,-!p5@ZEB2!1.02!9.38!ZEB2;;chr16:67198633..67198671,+!p1@HSF4!1.02!9.38!HSF4;;chr17:59477266..59477273,+!p6@TBX2!1.02!9.38!TBX2;;chr19:3572689..3572697,+!p22@HMG20B!1.02!9.38!HMG20B;;chr19:3572925..3573014,+!p1@HMG20B!1.01!275.46!HMG20B;;chr8:72756063..72756125,-!p1@MSC!1.01!18.75!MSC;;chr2:145277640..145277771,-!p1@ZEB2!1.00!124.25!ZEB2;;chr8:37553261..37553282,+!p2@ZNF703!0.97!65.64!ZNF703;;chr17:41623692..41623715,-!p1@ETV4!0.97!36.34!ETV4;;chr19:3572758..3572795,+!p7@HMG20B!0.96!8.21!HMG20B;;chr3:69985792..69985803,+!p7@MITF!0.96!8.21!MITF;;chr1:2461692..2461710,-!p1@HES5!0.96!8.21!HES5;;chr1:25256439..25256476,-!p3@RUNX3!0.96!8.21!RUNX3;;chr12:54393880..54393962,+!p1@HOXC9!0.96!8.21!HOXC9;;chr2:145277882..145277967,-!p3@ZEB2!0.95!14.07!ZEB2;;chr9:102584159..102584174,+!p2@NR4A3!0.94!14.07!NR4A3;;chr11:615570..615721,-!p2@IRF7!0.93!15.24!IRF7;;chr1:204042233..204042249,+!p1@SOX13!0.92!48.06!SOX13;;chr19:35759824..35759891,+!p1@USF2!0.91!233.26!USF2;;chr19:35759976..35760042,+!p4@USF2!0.91!38.68!USF2;;chr8:128750654..128750793,+!p3@MYC!0.90!29.30!MYC;;chr8:72755987..72756002,-!p7@MSC!0.90!7.03!MSC;;chr12:54378923..54378966,+!p1@HOXC10!0.90!7.03!HOXC10;;chr12:54380036..54380091,+!p4@HOXC10!0.90!7.03!HOXC10;;chr12:85673868..85673881,+!p2@ALX1!0.90!7.03!ALX1;;chr2:176994408..176994492,+!p1@HOXD8!0.90!7.03!HOXD8;;chrY:21906594..21906622,-!p1@KDM5D!0.90!7.03!KDM5D;;chr8:37553292..37553317,+!p1@ZNF703!0.89!169.97!ZNF703;;chr17:40440481..40440550,+!p1@STAT5A!0.89!51.58!STAT5A;;chr16:30583017..30583064,-!p1@ZNF688!0.88!35.17!ZNF688;;chr12:26277929..26277955,-!p3@BHLHE41!0.87!9.38!BHLHE41;;chr19:3573282..3573289,+!p5@HMG20B!0.87!8.21!HMG20B;;chr8:49833978..49833996,-!p1@SNAI2!0.86!134.80!SNAI2;;chr20:32274150..32274166,-!p2@E2F1!0.85!11.72!E2F1;;chr20:50179584..50179611,-!p6@NFATC2!0.84!5.86!NFATC2;;chr6:10412262..10412271,-!p21@TFAP2A!0.84!5.86!TFAP2A;;chr8:72756380..72756427,-!p8@MSC!0.84!5.86!MSC;;chr8:72756522..72756533,-!p13@MSC!0.84!5.86!MSC;;chr9:16728047..16728061,-!p8@BNC2!0.84!5.86!BNC2;;chr16:54320280..54320291,-!p9@IRX3!0.84!5.86!IRX3;;chr17:46806016..46806029,-!p5@HOXB13!0.84!5.86!HOXB13;;chr12:54447637..54447659,+!p4@HOXC4!0.84!5.86!HOXC4;;chr12:85674018..85674039,+!p3@ALX1!0.84!5.86!ALX1;;chr20:306177..306211,+!p2@SOX12!0.83!42.20!SOX12;;chr19:36134528..36134563,+!p1@ETV2!0.83!17.58!ETV2;;chr11:64764435..64764449,-!p1@BATF2!0.83!8.21!BATF2;;chr8:72756023..72756055,-!p6@MSC!0.82!7.03!MSC;;chr12:53614115..53614154,-!p1@RARG!0.81!31.65!RARG;;chr2:71127699..71127744,+!p1@VAX2!0.81!11.72!VAX2;;chr1:204042723..204042784,+!p3@SOX13!0.81!9.38!SOX13;;chr16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| |expression_enrichment_score=chr22:38380543..38380569,-!p1@SOX10!3.01!1026.82!SOX10;;chr3:69985734..69985749,+!p2@MITF!2.34!219.20!MITF;;chr6:391743..391759,+!p1@IRF4!2.31!202.79!IRF4;;chr6:10415276..10415341,-!p2@TFAP2A!2.30!240.30!TFAP2A;;chr19:3574330..3574393,+!p2@HMG20B!2.29!192.24!HMG20B;;chr2:223163706..223163730,-!p1@PAX3!2.19!153.55!PAX3;;chr6:10412600..10412637,-!p1@TFAP2A!2.06!182.86!TFAP2A;;chr19:3574157..3574180,+!p4@HMG20B!1.92!82.05!HMG20B;;chr15:42749722..42749739,-!p2@ZFP106!1.85!121.91!ZFP106;;chr19:3574400..3574430,+!p6@HMG20B!1.81!63.30!HMG20B;;chr6:10415484..10415508,-!p3@TFAP2A!1.80!62.13!TFAP2A;;chr17:59477233..59477263,+!p1@TBX2!1.64!128.94!TBX2;;chr8:72756637..72756664,-!p3@MSC!1.60!43.37!MSC;;chr2:239148671..239148686,-!p1@HES6!1.59!134.80!HES6;;chr17:59477275..59477286,+!p3@TBX2!1.59!50.40!TBX2;;chr12:26277817..26277863,-!p2@BHLHE41!1.56!46.89!BHLHE41;;chr6:10412392..10412409,-!p4@TFAP2A!1.50!35.17!TFAP2A;;chr1:25256756..25256774,-!p1@RUNX3!1.46!51.58!RUNX3;;chr6:10415263..10415274,-!p8@TFAP2A!1.39!23.44!TFAP2A;;chr6:10412576..10412599,-!p5@TFAP2A!1.37!22.27!TFAP2A;;chr11:125034640..125034655,+!p1@PKNOX2!1.32!19.93!PKNOX2;;chr8:72756267..72756296,-!p4@MSC!1.31!28.13!MSC;;chr19:3574468..3574478,+!p19@HMG20B!1.27!17.58!HMG20B;;chr20:55204351..55204377,+!p1@TFAP2C!1.25!21.10!TFAP2C;;chr17:46806067..46806097,-!p1@HOXB13!1.24!16.41!HOXB13;;chr11:125034605..125034636,+!p2@PKNOX2!1.21!15.24!PKNOX2;;chr20:50179368..50179392,-!p2@NFATC2!1.19!18.75!NFATC2;;chr9:102584262..102584276,+!p1@NR4A3!1.15!29.30!NR4A3;;chr3:185826855..185826911,-!p1@ETV5!1.14!348.14!ETV5;;chr16:67198683..67198698,+!p2@HSF4!1.14!12.89!HSF4;;chr17:46806035..46806059,-!p2@HOXB13!1.14!12.89!HOXB13;;chr12:54410664..54410684,+!p1@HOXC4,p1@HOXC5,p1@HOXC6!1.14!12.89!HOXC5;;chr12:26277956..26277980,-!p1@BHLHE41!1.10!42.20!BHLHE41;;chr17:59477197..59477212,+!p2@TBX2!1.10!19.93!TBX2;;chr2:177053386..177053402,+!p1@HOXD1!1.10!11.72!HOXD1;;chr1:63788229..63788250,+!p1@FOXD3!1.10!11.72!FOXD3;;chr5:321810..321877,+!p1@AHRR!1.09!36.34!AHRR;;chr6:10412477..10412490,-!p10@TFAP2A!1.06!10.55!TFAP2A;;chr19:3576938..3576962,+!p9@HMG20B!1.06!10.55!HMG20B;;chr22:41721853..41721874,+!p6@ZC3H7B!1.06!10.55!ZC3H7B;;chr8:128748308..128748324,+!p2@MYC!1.03!275.46!MYC;;chr8:72756667..72756736,-!p2@MSC!1.03!15.24!MSC;;chr12:54447599..54447630,+!p3@HOXC4!1.02!11.72!HOXC4;;chr2:145271342..145271377,-!p5@ZEB2!1.02!9.38!ZEB2;;chr16:67198633..67198671,+!p1@HSF4!1.02!9.38!HSF4;;chr17:59477266..59477273,+!p6@TBX2!1.02!9.38!TBX2;;chr19:3572689..3572697,+!p22@HMG20B!1.02!9.38!HMG20B;;chr19:3572925..3573014,+!p1@HMG20B!1.01!275.46!HMG20B;;chr8:72756063..72756125,-!p1@MSC!1.01!18.75!MSC;;chr2:145277640..145277771,-!p1@ZEB2!1.00!124.25!ZEB2;;chr8:37553261..37553282,+!p2@ZNF703!0.97!65.64!ZNF703;;chr17:41623692..41623715,-!p1@ETV4!0.97!36.34!ETV4;;chr19:3572758..3572795,+!p7@HMG20B!0.96!8.21!HMG20B;;chr3:69985792..69985803,+!p7@MITF!0.96!8.21!MITF;;chr1:2461692..2461710,-!p1@HES5!0.96!8.21!HES5;;chr1:25256439..25256476,-!p3@RUNX3!0.96!8.21!RUNX3;;chr12:54393880..54393962,+!p1@HOXC9!0.96!8.21!HOXC9;;chr2:145277882..145277967,-!p3@ZEB2!0.95!14.07!ZEB2;;chr9:102584159..102584174,+!p2@NR4A3!0.94!14.07!NR4A3;;chr11:615570..615721,-!p2@IRF7!0.93!15.24!IRF7;;chr1:204042233..204042249,+!p1@SOX13!0.92!48.06!SOX13;;chr19:35759824..35759891,+!p1@USF2!0.91!233.26!USF2;;chr19:35759976..35760042,+!p4@USF2!0.91!38.68!USF2;;chr8:128750654..128750793,+!p3@MYC!0.90!29.30!MYC;;chr8:72755987..72756002,-!p7@MSC!0.90!7.03!MSC;;chr12:54378923..54378966,+!p1@HOXC10!0.90!7.03!HOXC10;;chr12:54380036..54380091,+!p4@HOXC10!0.90!7.03!HOXC10;;chr12:85673868..85673881,+!p2@ALX1!0.90!7.03!ALX1;;chr2:176994408..176994492,+!p1@HOXD8!0.90!7.03!HOXD8;;chrY:21906594..21906622,-!p1@KDM5D!0.90!7.03!KDM5D;;chr8:37553292..37553317,+!p1@ZNF703!0.89!169.97!ZNF703;;chr17:40440481..40440550,+!p1@STAT5A!0.89!51.58!STAT5A;;chr16:30583017..30583064,-!p1@ZNF688!0.88!35.17!ZNF688;;chr12:26277929..26277955,-!p3@BHLHE41!0.87!9.38!BHLHE41;;chr19:3573282..3573289,+!p5@HMG20B!0.87!8.21!HMG20B;;chr8:49833978..49833996,-!p1@SNAI2!0.86!134.80!SNAI2;;chr20:32274150..32274166,-!p2@E2F1!0.85!11.72!E2F1;;chr20:50179584..50179611,-!p6@NFATC2!0.84!5.86!NFATC2;;chr6:10412262..10412271,-!p21@TFAP2A!0.84!5.86!TFAP2A;;chr8:72756380..72756427,-!p8@MSC!0.84!5.86!MSC;;chr8:72756522..72756533,-!p13@MSC!0.84!5.86!MSC;;chr9:16728047..16728061,-!p8@BNC2!0.84!5.86!BNC2;;chr16:54320280..54320291,-!p9@IRX3!0.84!5.86!IRX3;;chr17:46806016..46806029,-!p5@HOXB13!0.84!5.86!HOXB13;;chr12:54447637..54447659,+!p4@HOXC4!0.84!5.86!HOXC4;;chr12:85674018..85674039,+!p3@ALX1!0.84!5.86!ALX1;;chr20:306177..306211,+!p2@SOX12!0.83!42.20!SOX12;;chr19:36134528..36134563,+!p1@ETV2!0.83!17.58!ETV2;;chr11:64764435..64764449,-!p1@BATF2!0.83!8.21!BATF2;;chr8:72756023..72756055,-!p6@MSC!0.82!7.03!MSC;;chr12:53614115..53614154,-!p1@RARG!0.81!31.65!RARG;;chr2:71127699..71127744,+!p1@VAX2!0.81!11.72!VAX2;;chr1:204042723..204042784,+!p3@SOX13!0.81!9.38!SOX13;;chr16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| ||
|fantom_cat=http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000066;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000133;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000147;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000148;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000221;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000710;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0002077;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0002567 | |||
|ffid_belonging_in_development=CL:0000133,CL:0000221 | |ffid_belonging_in_development=CL:0000133,CL:0000221 | ||
|fonse_cell_line= | |fonse_cell_line= | ||
Line 38: | Line 44: | ||
|fonse_treatment_closure= | |fonse_treatment_closure= | ||
|has_quality= | |has_quality= | ||
|hg19bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Melanocyte%2520-%2520light%252c%2520donor2.CNhs11383.11351-117H1.hg19.nobarcode.bam | |||
|hg19ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Melanocyte%2520-%2520light%252c%2520donor2.CNhs11383.11351-117H1.hg19.ctss.bed.gz | |||
|hg19fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Melanocyte%2520-%2520light%252c%2520donor2.CNhs11383.11351-117H1.hg19.nobarcode.rdna.fa.gz | |||
|hg38bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.hCAGE/Melanocyte%2520-%2520light%252c%2520donor2.CNhs11383.11351-117H1.hg38.nobarcode.bam | |||
|hg38ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.hCAGE/Melanocyte%2520-%2520light%252c%2520donor2.CNhs11383.11351-117H1.hg38.nobarcode.ctss.bed.gz | |||
|id=FF:11351-117H1 | |id=FF:11351-117H1 | ||
|is_a=EFO:0002091;;FF:0000090 | |is_a=EFO:0002091;;FF:0000090 | ||
|is_obsolete= | |is_obsolete= | ||
|library_id=CNhs11383 | |||
|library_id_phase_based=2:CNhs11383 | |||
|microRNAs= | |||
|microRNAs_nn= | |||
|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/human#cage;sample;11351 | |||
|microRNAs_nonnovel_srna=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2016/vis_viewer/#/human#srna;sample;SRhi10015.AGTTCC.11351 | |||
|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/human#cage;sample;11351 | |||
|microRNAs_novel_srna=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2016/vis_viewer_novel/#/human#srna;sample;SRhi10015.AGTTCC.11351 | |||
|name=Melanocyte - light, donor2 | |name=Melanocyte - light, donor2 | ||
|namespace=FANTOM5 | |namespace=FANTOM5 | ||
Line 46: | Line 65: | ||
|profile_cagescan=,,, | |profile_cagescan=,,, | ||
|profile_hcage=CNhs11383,LSID771,release012,COMPLETED | |profile_hcage=CNhs11383,LSID771,release012,COMPLETED | ||
|profile_rnaseq= | |profile_rnaseq= | ||
|profile_srnaseq=SRhi10015,,, | |profile_srnaseq=SRhi10015,,, | ||
|refex=http://refex.dbcls.jp/genelist.php?lang | |||
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Line 62: | Line 82: | ||
|rna_tube_id=117H1 | |rna_tube_id=117H1 | ||
|rna_weight_ug=10 | |rna_weight_ug=10 | ||
|rnaseq_library_id=SRhi10015.AGTTCC | |||
|sample_age=Neonatal | |sample_age=Neonatal | ||
|sample_category=primary cells | |||
|sample_cell_catalog=N/A | |sample_cell_catalog=N/A | ||
|sample_cell_line= | |sample_cell_line= | ||
Line 84: | Line 106: | ||
|top_motifs=ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:3.25735698376;NFE2L1:2.60575072517;SREBF1,2:2.08690386321;NR5A1,2:2.03771739098;PAX6:2.0033725104;ZNF423:1.77110662212;ESRRA:1.72437594166;HES1:1.6857939808;bHLH_family:1.57900694128;RXR{A,B,G}:1.46533069628;NANOG:1.17020087233;EN1,2:1.15822496778;SOX{8,9,10}:1.13840659576;PBX1:1.11588634771;PAX8:1.07898878684;GTF2A1,2:1.07886838597;NR3C1:1.04412006766;EBF1:1.02486721206;XCPE1{core}:0.881214561699;ESR1:0.863913572757;HOX{A6,A7,B6,B7}:0.850920772726;POU3F1..4:0.850445029173;TFCP2:0.820752729342;TFDP1:0.802151721414;HMX1:0.738410658475;LHX3,4:0.728115649628;SP1:0.684143688794;RORA:0.669771021152;ZNF238:0.64118009625;GFI1:0.617267010397;ARID5B:0.584352545052;NFY{A,B,C}:0.575534794364;AR:0.548786520108;TLX1..3_NFIC{dimer}:0.543412856678;GZF1:0.536966862279;FOX{F1,F2,J1}:0.534652799886;POU2F1..3:0.532322352242;NKX2-3_NKX2-5:0.520779328561;PAX2:0.511675315733;LMO2:0.5011725752;PAX5:0.459582182485;JUN:0.443379671488;RFX2..5_RFXANK_RFXAP:0.432733683942;ZNF148:0.430772583235;TFAP2{A,C}:0.430417100943;HOXA9_MEIS1:0.427452747941;POU1F1:0.419749251958;ZIC1..3:0.398347803627;XBP1:0.352700052919;GFI1B:0.347263261197;HIC1:0.31590541829;TFAP2B:0.292798141674;HNF4A_NR2F1,2:0.285697682834;ZNF143:0.275816851422;SOX5:0.272007471919;EP300:0.267472902707;HOX{A4,D4}:0.240174295559;NFIX:0.233292361417;ZBTB6:0.226014185078;PRRX1,2:0.207941000313;GTF2I:0.161112027406;PAX1,9:0.146130501177;TP53:0.125148986864;CUX2:0.0994937921433;YY1:0.0596488409259;FOX{D1,D2}:0.0552301684187;REST:0.0547457330279;NHLH1,2:0.0397972126846;E2F1..5:0.0360050421112;SOX2:0.0255343525218;HNF1A:0.0148568906594;RUNX1..3:0.0134338165752;OCT4_SOX2{dimer}:0.00604460309331;RXRA_VDR{dimer}:-0.00407360507093;FOXM1:-0.00894347592776;STAT5{A,B}:-0.0112948243079;RFX1:-0.0156460435004;FOSL2:-0.0323354461921;BACH2:-0.0335853618233;MEF2{A,B,C,D}:-0.0338118789696;POU6F1:-0.0457605837731;GATA6:-0.050011564781;NRF1:-0.0852882539498;ONECUT1,2:-0.0969672397959;VSX1,2:-0.124040617164;IKZF1:-0.144311163748;GLI1..3:-0.163925559451;LEF1_TCF7_TCF7L1,2:-0.173989243791;MTF1:-0.186341372191;MYB:-0.192892782427;ELK1,4_GABP{A,B1}:-0.209305969415;NFE2:-0.212773755676;CRX:-0.213226477965;BREu{core}:-0.242707779275;GCM1,2:-0.253315896362;CREB1:-0.288600244168;PAX4:-0.289958170009;IRF7:-0.295185049196;UFEwm:-0.300559870638;SOX17:-0.31186373798;ZFP161:-0.317004057591;FOS_FOS{B,L1}_JUN{B,D}:-0.323954022544;SPI1:-0.325256515465;ETS1,2:-0.328857762344;PPARG:-0.337302013497;HOX{A5,B5}:-0.346166376551;EGR1..3:-0.346630821978;SPIB:-0.361569497556;NFIL3:-0.364197170215;FOXL1:-0.366607758451;RREB1:-0.37776420603;IRF1,2:-0.382971971105;CEBPA,B_DDIT3:-0.391743891819;MED-1{core}:-0.400561140319;TFAP4:-0.43123757329;SNAI1..3:-0.43928297179;NFKB1_REL_RELA:-0.444582757228;FOXA2:-0.456177270227;CDC5L:-0.462071495115;MAFB:-0.462484100311;HAND1,2:-0.47603896205;ATF5_CREB3:-0.477072444218;NFE2L2:-0.483292758287;NANOG{mouse}:-0.489153802681;TGIF1:-0.496946027429;ELF1,2,4:-0.50435070013;STAT1,3:-0.523732210269;TEAD1:-0.534970997702;TLX2:-0.54507835662;FOXP3:-0.54924658952;FOX{I1,J2}:-0.559659241922;TAL1_TCF{3,4,12}:-0.564197729303;ATF4:-0.58872482388;STAT2,4,6:-0.629652531175;MYOD1:-0.633384054509;TOPORS:-0.634684804668;TEF:-0.645905864582;KLF4:-0.654918583561;AHR_ARNT_ARNT2:-0.668943887268;NFATC1..3:-0.679324459392;HLF:-0.698602171905;SRF:-0.753241285181;EVI1:-0.783969544411;NR6A1:-0.785119615575;SMAD1..7,9:-0.793529368449;RBPJ:-0.809226120486;MAZ:-0.810835480343;HBP1_HMGB_SSRP1_UBTF:-0.845592809724;PDX1:-0.855354626408;MZF1:-0.888468616305;MYFfamily:-0.894137160254;ALX4:-0.903415463906;PATZ1:-0.908294190151;MYBL2:-0.912070743834;ADNP_IRX_SIX_ZHX:-0.912161277573;TBP:-0.91282213494;ZEB1:-0.920335130342;DBP:-0.951452187828;PAX3,7:-1.00486182741;ATF2:-1.00627958958;NR1H4:-1.02042651043;RXR{A,B,G}_{NR1H2,PPAR}dimers:-1.04304952976;MTE{core}:-1.0536599271;DMAP1_NCOR{1,2}_SMARC:-1.06103005774;NKX6-1,2:-1.0694230853;HMGA1,2:-1.10417896609;PRDM1:-1.12331219806;ATF6:-1.2111441263;TBX4,5:-1.21216128402;PITX1..3:-1.22645350761;BPTF:-1.2376771097;SPZ1:-1.25631823786;T:-1.29926980821;HIF1A:-1.30773389293;FOXQ1:-1.32363995457;HSF1,2:-1.33024897862;NKX3-2:-1.35022412949;FOXO1,3,4:-1.3605036268;ZNF384:-1.389389177;FOXN1:-1.396723139;GATA4:-1.40841899148;IKZF2:-1.6499778207;ZBTB16:-1.66387704017;NKX3-1:-1.70925143793;NKX2-1,4:-1.71351692222;CDX1,2,4:-1.7304338195;AIRE:-1.76093044152;NKX2-2,8:-1.76815110125;FOXP1:-1.85871327121;POU5F1:-1.91855605949;ALX1:-2.4517085752;FOXD3:-2.85523579943 | |top_motifs=ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:3.25735698376;NFE2L1:2.60575072517;SREBF1,2:2.08690386321;NR5A1,2:2.03771739098;PAX6:2.0033725104;ZNF423:1.77110662212;ESRRA:1.72437594166;HES1:1.6857939808;bHLH_family:1.57900694128;RXR{A,B,G}:1.46533069628;NANOG:1.17020087233;EN1,2:1.15822496778;SOX{8,9,10}:1.13840659576;PBX1:1.11588634771;PAX8:1.07898878684;GTF2A1,2:1.07886838597;NR3C1:1.04412006766;EBF1:1.02486721206;XCPE1{core}:0.881214561699;ESR1:0.863913572757;HOX{A6,A7,B6,B7}:0.850920772726;POU3F1..4:0.850445029173;TFCP2:0.820752729342;TFDP1:0.802151721414;HMX1:0.738410658475;LHX3,4:0.728115649628;SP1:0.684143688794;RORA:0.669771021152;ZNF238:0.64118009625;GFI1:0.617267010397;ARID5B:0.584352545052;NFY{A,B,C}:0.575534794364;AR:0.548786520108;TLX1..3_NFIC{dimer}:0.543412856678;GZF1:0.536966862279;FOX{F1,F2,J1}:0.534652799886;POU2F1..3:0.532322352242;NKX2-3_NKX2-5:0.520779328561;PAX2:0.511675315733;LMO2:0.5011725752;PAX5:0.459582182485;JUN:0.443379671488;RFX2..5_RFXANK_RFXAP:0.432733683942;ZNF148:0.430772583235;TFAP2{A,C}:0.430417100943;HOXA9_MEIS1:0.427452747941;POU1F1:0.419749251958;ZIC1..3:0.398347803627;XBP1:0.352700052919;GFI1B:0.347263261197;HIC1:0.31590541829;TFAP2B:0.292798141674;HNF4A_NR2F1,2:0.285697682834;ZNF143:0.275816851422;SOX5:0.272007471919;EP300:0.267472902707;HOX{A4,D4}:0.240174295559;NFIX:0.233292361417;ZBTB6:0.226014185078;PRRX1,2:0.207941000313;GTF2I:0.161112027406;PAX1,9:0.146130501177;TP53:0.125148986864;CUX2:0.0994937921433;YY1:0.0596488409259;FOX{D1,D2}:0.0552301684187;REST:0.0547457330279;NHLH1,2:0.0397972126846;E2F1..5:0.0360050421112;SOX2:0.0255343525218;HNF1A:0.0148568906594;RUNX1..3:0.0134338165752;OCT4_SOX2{dimer}:0.00604460309331;RXRA_VDR{dimer}:-0.00407360507093;FOXM1:-0.00894347592776;STAT5{A,B}:-0.0112948243079;RFX1:-0.0156460435004;FOSL2:-0.0323354461921;BACH2:-0.0335853618233;MEF2{A,B,C,D}:-0.0338118789696;POU6F1:-0.0457605837731;GATA6:-0.050011564781;NRF1:-0.0852882539498;ONECUT1,2:-0.0969672397959;VSX1,2:-0.124040617164;IKZF1:-0.144311163748;GLI1..3:-0.163925559451;LEF1_TCF7_TCF7L1,2:-0.173989243791;MTF1:-0.186341372191;MYB:-0.192892782427;ELK1,4_GABP{A,B1}:-0.209305969415;NFE2:-0.212773755676;CRX:-0.213226477965;BREu{core}:-0.242707779275;GCM1,2:-0.253315896362;CREB1:-0.288600244168;PAX4:-0.289958170009;IRF7:-0.295185049196;UFEwm:-0.300559870638;SOX17:-0.31186373798;ZFP161:-0.317004057591;FOS_FOS{B,L1}_JUN{B,D}:-0.323954022544;SPI1:-0.325256515465;ETS1,2:-0.328857762344;PPARG:-0.337302013497;HOX{A5,B5}:-0.346166376551;EGR1..3:-0.346630821978;SPIB:-0.361569497556;NFIL3:-0.364197170215;FOXL1:-0.366607758451;RREB1:-0.37776420603;IRF1,2:-0.382971971105;CEBPA,B_DDIT3:-0.391743891819;MED-1{core}:-0.400561140319;TFAP4:-0.43123757329;SNAI1..3:-0.43928297179;NFKB1_REL_RELA:-0.444582757228;FOXA2:-0.456177270227;CDC5L:-0.462071495115;MAFB:-0.462484100311;HAND1,2:-0.47603896205;ATF5_CREB3:-0.477072444218;NFE2L2:-0.483292758287;NANOG{mouse}:-0.489153802681;TGIF1:-0.496946027429;ELF1,2,4:-0.50435070013;STAT1,3:-0.523732210269;TEAD1:-0.534970997702;TLX2:-0.54507835662;FOXP3:-0.54924658952;FOX{I1,J2}:-0.559659241922;TAL1_TCF{3,4,12}:-0.564197729303;ATF4:-0.58872482388;STAT2,4,6:-0.629652531175;MYOD1:-0.633384054509;TOPORS:-0.634684804668;TEF:-0.645905864582;KLF4:-0.654918583561;AHR_ARNT_ARNT2:-0.668943887268;NFATC1..3:-0.679324459392;HLF:-0.698602171905;SRF:-0.753241285181;EVI1:-0.783969544411;NR6A1:-0.785119615575;SMAD1..7,9:-0.793529368449;RBPJ:-0.809226120486;MAZ:-0.810835480343;HBP1_HMGB_SSRP1_UBTF:-0.845592809724;PDX1:-0.855354626408;MZF1:-0.888468616305;MYFfamily:-0.894137160254;ALX4:-0.903415463906;PATZ1:-0.908294190151;MYBL2:-0.912070743834;ADNP_IRX_SIX_ZHX:-0.912161277573;TBP:-0.91282213494;ZEB1:-0.920335130342;DBP:-0.951452187828;PAX3,7:-1.00486182741;ATF2:-1.00627958958;NR1H4:-1.02042651043;RXR{A,B,G}_{NR1H2,PPAR}dimers:-1.04304952976;MTE{core}:-1.0536599271;DMAP1_NCOR{1,2}_SMARC:-1.06103005774;NKX6-1,2:-1.0694230853;HMGA1,2:-1.10417896609;PRDM1:-1.12331219806;ATF6:-1.2111441263;TBX4,5:-1.21216128402;PITX1..3:-1.22645350761;BPTF:-1.2376771097;SPZ1:-1.25631823786;T:-1.29926980821;HIF1A:-1.30773389293;FOXQ1:-1.32363995457;HSF1,2:-1.33024897862;NKX3-2:-1.35022412949;FOXO1,3,4:-1.3605036268;ZNF384:-1.389389177;FOXN1:-1.396723139;GATA4:-1.40841899148;IKZF2:-1.6499778207;ZBTB16:-1.66387704017;NKX3-1:-1.70925143793;NKX2-1,4:-1.71351692222;CDX1,2,4:-1.7304338195;AIRE:-1.76093044152;NKX2-2,8:-1.76815110125;FOXP1:-1.85871327121;POU5F1:-1.91855605949;ALX1:-2.4517085752;FOXD3:-2.85523579943 | ||
|xref= | |xref= | ||
|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_human;search_select_hide=table111:FF:11351-117H1;search_select_hide=table117:FF:11351-117H1 | |||
}} | }} |
Latest revision as of 17:54, 4 June 2020
Name: | Melanocyte - light, donor2 |
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Species: | Human (Homo sapiens) |
Library ID: | CNhs11383 |
Sample type: | primary cells |
Genomic View: | UCSC |
RefEX: | Specific genes |
FANTOM CAT: | 1, 2, 3, 4, 5, 6, 7, 8 |
CAGEd-oPOSSUM: | link |
ZENBU report : | link |
Additional information | ||||||||||||||||||||||||||||
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Sample information
RNA information
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CAGE Accession numbers | ||||||||||||||||||||||||||||||||||||||||||||||
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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: CNhs11383
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: CNhs11383
Novel motif | Logo | P-value |
---|---|---|
1 | 1 | 0.864 |
10 | 10 | 0.538 |
100 | 100 | 0.533 |
101 | 101 | 0.0478 |
102 | 102 | 0.0388 |
103 | 103 | 0.0531 |
104 | 104 | 0.283 |
105 | 105 | 0.976 |
106 | 106 | 0.926 |
107 | 107 | 0.666 |
108 | 108 | 0.866 |
109 | 109 | 0.022 |
11 | 11 | 0.682 |
110 | 110 | 0.0379 |
111 | 111 | 0.0649 |
112 | 112 | 0.73 |
113 | 113 | 0.0188 |
114 | 114 | 0.571 |
115 | 115 | 0.749 |
116 | 116 | 0.89 |
117 | 117 | 0.271 |
118 | 118 | 0.873 |
119 | 119 | 0.695 |
12 | 12 | 0.66 |
120 | 120 | 0.955 |
121 | 121 | 0.295 |
122 | 122 | 0.163 |
123 | 123 | 0.956 |
124 | 124 | 0.895 |
125 | 125 | 0.484 |
126 | 126 | 0.794 |
127 | 127 | 0.645 |
128 | 128 | 0.429 |
129 | 129 | 0.0298 |
13 | 13 | 0.367 |
130 | 130 | 0.416 |
131 | 131 | 0.522 |
132 | 132 | 0.412 |
133 | 133 | 0.351 |
134 | 134 | 0.71 |
135 | 135 | 0.268 |
136 | 136 | 0.101 |
137 | 137 | 0.714 |
138 | 138 | 0.91 |
139 | 139 | 0.176 |
14 | 14 | 0.935 |
140 | 140 | 0.39 |
141 | 141 | 0.095 |
142 | 142 | 0.975 |
143 | 143 | 0.409 |
144 | 144 | 0.764 |
145 | 145 | 0.672 |
146 | 146 | 3.41269e-4 |
147 | 147 | 0.6 |
148 | 148 | 0.0113 |
149 | 149 | 0.695 |
15 | 15 | 0.782 |
150 | 150 | 0.734 |
151 | 151 | 0.861 |
152 | 152 | 0.283 |
153 | 153 | 0.069 |
154 | 154 | 0.0166 |
155 | 155 | 0.654 |
156 | 156 | 0.921 |
157 | 157 | 0.867 |
158 | 158 | 0.567 |
159 | 159 | 0.843 |
16 | 16 | 0.377 |
160 | 160 | 0.701 |
161 | 161 | 0.641 |
162 | 162 | 0.048 |
163 | 163 | 0.726 |
164 | 164 | 0.255 |
165 | 165 | 0.18 |
166 | 166 | 0.486 |
167 | 167 | 0.17 |
168 | 168 | 0.215 |
169 | 169 | 0.21 |
17 | 17 | 0.419 |
18 | 18 | 0.158 |
19 | 19 | 0.311 |
2 | 2 | 0.933 |
20 | 20 | 0.824 |
21 | 21 | 0.414 |
22 | 22 | 0.011 |
23 | 23 | 0.668 |
24 | 24 | 0.949 |
25 | 25 | 0.358 |
26 | 26 | 0.49 |
27 | 27 | 0.23 |
28 | 28 | 0.273 |
29 | 29 | 0.0543 |
3 | 3 | 0.886 |
30 | 30 | 0.641 |
31 | 31 | 0.673 |
32 | 32 | 0.0868 |
33 | 33 | 0.304 |
34 | 34 | 0.236 |
35 | 35 | 0.438 |
36 | 36 | 0.884 |
37 | 37 | 0.66 |
38 | 38 | 0.312 |
39 | 39 | 0.799 |
4 | 4 | 0.601 |
40 | 40 | 0.0144 |
41 | 41 | 0.927 |
42 | 42 | 0.264 |
43 | 43 | 0.463 |
44 | 44 | 0.979 |
45 | 45 | 0.7 |
46 | 46 | 0.345 |
47 | 47 | 0.675 |
48 | 48 | 0.902 |
49 | 49 | 0.581 |
5 | 5 | 0.6 |
50 | 50 | 0.364 |
51 | 51 | 0.913 |
52 | 52 | 0.797 |
53 | 53 | 0.112 |
54 | 54 | 0.626 |
55 | 55 | 0.447 |
56 | 56 | 0.587 |
57 | 57 | 0.45 |
58 | 58 | 0.128 |
59 | 59 | 0.268 |
6 | 6 | 0.933 |
60 | 60 | 0.823 |
61 | 61 | 0.677 |
62 | 62 | 0.0293 |
63 | 63 | 0.51 |
64 | 64 | 0.363 |
65 | 65 | 0.0683 |
66 | 66 | 0.00564 |
67 | 67 | 0.664 |
68 | 68 | 0.151 |
69 | 69 | 0.709 |
7 | 7 | 0.946 |
70 | 70 | 0.822 |
71 | 71 | 0.729 |
72 | 72 | 0.949 |
73 | 73 | 0.00748 |
74 | 74 | 0.189 |
75 | 75 | 0.528 |
76 | 76 | 0.887 |
77 | 77 | 0.412 |
78 | 78 | 0.21 |
79 | 79 | 0.647 |
8 | 8 | 0.3 |
80 | 80 | 0.76 |
81 | 81 | 0.856 |
82 | 82 | 0.998 |
83 | 83 | 0.277 |
84 | 84 | 0.151 |
85 | 85 | 0.351 |
86 | 86 | 0.782 |
87 | 87 | 6.4636e-4 |
88 | 88 | 0.267 |
89 | 89 | 0.506 |
9 | 9 | 0.324 |
90 | 90 | 0.0226 |
91 | 91 | 0.612 |
92 | 92 | 0.0136 |
93 | 93 | 0.316 |
94 | 94 | 0.751 |
95 | 95 | 0.0526 |
96 | 96 | 0.903 |
97 | 97 | 0.196 |
98 | 98 | 0.127 |
99 | 99 | 0.266 |
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: CNhs11383
FANTOM5 (FF) ontology
Direct parent terms
is_a relathionship
EFO:0002091 biological replicate
FF:0000090 human light melanocyte 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
CL: Cell type
0000000 (cell), 0000000 (cell)
0000003 (native cell)
0000548 (animal cell)
0000075 (columnar/cuboidal epithelial cell)
0000066 (epithelial cell)
0002371 (somatic cell)
0000325 (stuff accumulating cell)
0000147 (pigment cell)
0000710 (neurecto-epithelial cell)
0000255 (eukaryotic cell)
0002077 (ecto-epithelial cell)
0000148 (melanocyte)
0002567 (light melanocyte)
FF: FANTOM5
0000102 (sample by type)
0000210 (human sample)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000001 (sample)
0000090 (human light melanocyte 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
CL:0000133 (neurectodermal cell)
CL:0000221 (ectodermal cell)