FF:11794-124C3: Difference between revisions
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{{f5samples | {{f5samples | ||
|DRA_sample_Accession=CAGE@SAMD00005636 | |||
|accession_numbers=CAGE;DRX008181;DRR009053;DRZ000478;DRZ001863;DRZ011828;DRZ013213 | |||
|ancestors_in_anatomy_facet= | |ancestors_in_anatomy_facet= | ||
|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003 | |ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003 | ||
Line 7: | Line 9: | ||
|created_by= | |created_by= | ||
|creation_date= | |creation_date= | ||
|datafreeze_phase= | |data_phase=2 | ||
|datafreeze_phase=2 | |||
|def= | |def= | ||
|expression_enrichment_score=chrX:49121165..49121179,-!p1@FOXP3!2.22!163.10!FOXP3;;chr10:8096631..8096660,+!p1@GATA3!2.03!128.01!GATA3;;chr10:8096772..8096787,+!p2@GATA3!2.01!119.10!GATA3;;chr2:231090433..231090469,+!p1@SP140!1.93!84.45!SP140;;chr7:50343634..50343717,+!p2@IKZF1!1.80!62.06!IKZF1;;chr10:35484053..35484076,+!p1@CREM!1.75!134.58!CREM;;chr14:75988831..75988847,+!p2@BATF!1.69!48.35!BATF;;chr14:75988771..75988826,+!p1@BATF!1.68!61.39!BATF;;chr2:192015701..192015743,-!p1@STAT4!1.66!60.50!STAT4;;chr2:231090471..231090504,+!p2@SP140!1.65!43.34!SP140;;chr3:12330560..12330579,+!p1@PPARG!1.64!48.24!PPARG;;chr2:192015750..192015793,-!p2@STAT4!1.60!52.14!STAT4;;chr17:37934365..37934387,-!p2@IKZF3!1.53!32.53!IKZF3;;chr16:79634624..79634642,-!p1@MAF!1.52!120.99!MAF;;chr6:391743..391759,+!p1@IRF4!1.52!32.31!IRF4;;chr9:117150254..117150271,-!p1@AKNA!1.50!82.44!AKNA;;chr16:79634595..79634620,-!p2@MAF!1.49!53.37!MAF;;chrY:21906594..21906622,-!p1@KDM5D!1.48!28.97!KDM5D;;chr7:50344251..50344288,+!p3@IKZF1!1.46!28.08!IKZF1;;chr20:56195474..56195506,-!p1@ZBP1!1.46!27.52!ZBP1;;chr16:68119324..68119364,+!p1@NFATC3!1.45!117.98!NFATC3;;chr6:106546808..106546833,+!p3@PRDM1!1.45!34.43!PRDM1;;chr10:8095593..8095625,+!p3@GATA3!1.40!28.52!GATA3;;chr7:50348268..50348366,+!p4@IKZF1!1.40!24.18!IKZF1;;chr7:50343895..50343936,+!p5@IKZF1!1.39!23.40!IKZF1;;chr17:37934204..37934241,-!p3@IKZF3!1.39!23.40!IKZF3;;chr7:50344289..50344323,+!p1@IKZF1!1.38!23.06!IKZF1;;chr15:60884706..60884743,-!p1@RORA!1.36!110.52!RORA;;chr1:25256756..25256774,-!p1@RUNX3!1.36!40.78!RUNX3;;chr20:50159198..50159299,-!p1@NFATC2!1.36!31.97!NFATC2;;chr3:18480217..18480239,-!p3@SATB1!1.36!22.17!SATB1;;chr3:18486354..18486377,-!p2@SATB1!1.33!25.62!SATB1;;chr3:63953435..63953499,+!p1@ATXN7!1.30!19.05!ATXN7;;chr1:92951607..92951661,-!p1@GFI1!1.30!18.83!GFI1;;chr13:41593425..41593480,-!p1@ELF1!1.28!111.08!ELF1;;chr19:19779619..19779670,+!p1@ZNF101!1.27!49.02!ZNF101;;chr4:57522674..57522699,-!p5@HOPX!1.25!16.60!HOPX;;chr19:16435625..16435682,+!p1@KLF2!1.24!519.84!KLF2;;chr8:60031619..60031676,-!p1@TOX!1.24!35.32!TOX;;chr19:19729477..19729542,-!p1@PBX4!1.22!33.20!PBX4;;chr17:38020392..38020477,-!p1@IKZF3!1.20!14.93!IKZF3;;chr4:57522598..57522664,-!p3@HOPX!1.19!14.48!HOPX;;chr10:35484090..35484104,+!p6@CREM!1.18!14.26!CREM;;chr17:45810594..45810608,+!p1@TBX21!1.17!13.81!TBX21;;chr4:185395633..185395651,-!p2@IRF2!1.16!21.73!IRF2;;chr20:56195525..56195556,-!p2@ZBP1!1.16!13.48!ZBP1;;chr11:128563948..128564003,+!p1@FLI1!1.13!148.18!FLI1;;chr12:56415246..56415286,+!p2@IKZF4!1.13!12.37!IKZF4;;chr16:88752889..88752921,-!p1@SNAI3!1.11!13.81!SNAI3;;chr7:137620650..137620677,-!p3@CREB3L2!1.11!11.92!CREB3L2;;chr7:77428066..77428132,+!p2@PHTF2!1.10!74.65!PHTF2;;chr19:36204309..36204335,+!p1@ZBTB32!1.10!11.70!ZBTB32;;chr4:57522166..57522260,-!p2@HOPX!1.09!13.15!HOPX;;chr16:79633894..79633954,-!p3@MAF!1.03!19.16!MAF;;chr3:141105705..141105770,+!p4@ZBTB38!1.02!11.48!ZBTB38;;chr19:19779686..19779697,+!p3@ZNF101!1.02!11.03!ZNF101;;chr17:37934280..37934299,-!p6@IKZF3!1.02!9.58!IKZF3;;chr1:158978768..158978800,+!p8@IFI16!1.02!9.47!IFI16;;chr6:106546834..106546850,+!p4@PRDM1!1.01!9.25!PRDM1;;chr1:23857698..23857733,-!p1@E2F2!1.00!16.82!E2F2;;chr6:106546731..106546755,+!p5@PRDM1!1.00!9.02!PRDM1;;chr11:47236584..47236679,+!p1@DDB2!0.99!97.48!DDB2;;chr10:35484804..35484902,+!p2@CREM!0.99!34.65!CREM;;chrY:2803415..2803468,+!p1@ZFY!0.97!8.36!ZFY;;chr16:79634581..79634592,-!p4@MAF!0.97!8.24!MAF;;chr6:45390300..45390335,+!p4@RUNX2!0.96!12.92!RUNX2;;chr10:8097321..8097348,+!p4@GATA3!0.96!8.02!GATA3;;chr12:56415287..56415300,+!p5@IKZF4!0.94!7.69!IKZF4;;chr10:104154246..104154347,+!p3@NFKB2!0.93!48.24!NFKB2;;chr19:4153613..4153652,+!p1@CREB3L3!0.93!7.58!CREB3L3;;chr2:231090344..231090361,-!p3@SP110!0.93!7.46!SP110;;chr17:38020516..38020544,-!p5@IKZF3!0.92!7.35!IKZF3;;chr1:92949331..92949377,-!p2@GFI1!0.92!7.24!GFI1;;chr11:128392085..128392232,-!p1@ETS1!0.91!250.12!ETS1;;chr6:45390269..45390298,+!p5@RUNX2!0.91!12.03!RUNX2;;chr10:8100691..8100732,+!p5@GATA3!0.91!7.13!GATA3;;chr7:137620684..137620711,-!p4@CREB3L2!0.90!7.02!CREB3L2;;chr21:36421147..36421193,-!p10@RUNX1!0.90!7.02!RUNX1;;chr6:106547079..106547114,+!p9@PRDM1!0.90!6.91!PRDM1;;chr1:158979686..158979745,+!p1@IFI16!0.89!235.52!IFI16;;chr20:52226313..52226350,-!p3@ZNF217!0.89!6.80!ZNF217;;chr1:25291475..25291511,-!p2@RUNX3!0.89!6.68!RUNX3;;chr2:242556880..242556899,-!p5@THAP4!0.89!6.68!THAP4;;chr6:15249128..15249177,+!p4@JARID2!0.88!12.26!JARID2;;chr4:57522513..57522548,-!p4@HOPX!0.88!6.57!HOPX;;chr6:106534230..106534254,+!p2@PRDM1!0.87!16.71!PRDM1;;chr6:106546786..106546802,+!p6@PRDM1!0.87!6.46!PRDM1;;chr2:242556900..242556916,-!p6@THAP4!0.87!6.35!THAP4;;chr10:35416142..35416169,+!p3@CREM!0.86!17.38!CREM;;chr4:185395590..185395627,-!p3@IRF2!0.85!7.69!IRF2;;chr16:88752861..88752884,-!p2@SNAI3!0.85!6.13!SNAI3;;chr7:64838786..64838809,+!p2@ZNF92!0.84!35.65!ZNF92;;chr2:238600933..238600985,+!p3@LRRFIP1!0.84!34.31!LRRFIP1;;chr21:36421535..364216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| |expression_enrichment_score=chrX:49121165..49121179,-!p1@FOXP3!2.22!163.10!FOXP3;;chr10:8096631..8096660,+!p1@GATA3!2.03!128.01!GATA3;;chr10:8096772..8096787,+!p2@GATA3!2.01!119.10!GATA3;;chr2:231090433..231090469,+!p1@SP140!1.93!84.45!SP140;;chr7:50343634..50343717,+!p2@IKZF1!1.80!62.06!IKZF1;;chr10:35484053..35484076,+!p1@CREM!1.75!134.58!CREM;;chr14:75988831..75988847,+!p2@BATF!1.69!48.35!BATF;;chr14:75988771..75988826,+!p1@BATF!1.68!61.39!BATF;;chr2:192015701..192015743,-!p1@STAT4!1.66!60.50!STAT4;;chr2:231090471..231090504,+!p2@SP140!1.65!43.34!SP140;;chr3:12330560..12330579,+!p1@PPARG!1.64!48.24!PPARG;;chr2:192015750..192015793,-!p2@STAT4!1.60!52.14!STAT4;;chr17:37934365..37934387,-!p2@IKZF3!1.53!32.53!IKZF3;;chr16:79634624..79634642,-!p1@MAF!1.52!120.99!MAF;;chr6:391743..391759,+!p1@IRF4!1.52!32.31!IRF4;;chr9:117150254..117150271,-!p1@AKNA!1.50!82.44!AKNA;;chr16:79634595..79634620,-!p2@MAF!1.49!53.37!MAF;;chrY:21906594..21906622,-!p1@KDM5D!1.48!28.97!KDM5D;;chr7:50344251..50344288,+!p3@IKZF1!1.46!28.08!IKZF1;;chr20:56195474..56195506,-!p1@ZBP1!1.46!27.52!ZBP1;;chr16:68119324..68119364,+!p1@NFATC3!1.45!117.98!NFATC3;;chr6:106546808..106546833,+!p3@PRDM1!1.45!34.43!PRDM1;;chr10:8095593..8095625,+!p3@GATA3!1.40!28.52!GATA3;;chr7:50348268..50348366,+!p4@IKZF1!1.40!24.18!IKZF1;;chr7:50343895..50343936,+!p5@IKZF1!1.39!23.40!IKZF1;;chr17:37934204..37934241,-!p3@IKZF3!1.39!23.40!IKZF3;;chr7:50344289..50344323,+!p1@IKZF1!1.38!23.06!IKZF1;;chr15:60884706..60884743,-!p1@RORA!1.36!110.52!RORA;;chr1:25256756..25256774,-!p1@RUNX3!1.36!40.78!RUNX3;;chr20:50159198..50159299,-!p1@NFATC2!1.36!31.97!NFATC2;;chr3:18480217..18480239,-!p3@SATB1!1.36!22.17!SATB1;;chr3:18486354..18486377,-!p2@SATB1!1.33!25.62!SATB1;;chr3:63953435..63953499,+!p1@ATXN7!1.30!19.05!ATXN7;;chr1:92951607..92951661,-!p1@GFI1!1.30!18.83!GFI1;;chr13:41593425..41593480,-!p1@ELF1!1.28!111.08!ELF1;;chr19:19779619..19779670,+!p1@ZNF101!1.27!49.02!ZNF101;;chr4:57522674..57522699,-!p5@HOPX!1.25!16.60!HOPX;;chr19:16435625..16435682,+!p1@KLF2!1.24!519.84!KLF2;;chr8:60031619..60031676,-!p1@TOX!1.24!35.32!TOX;;chr19:19729477..19729542,-!p1@PBX4!1.22!33.20!PBX4;;chr17:38020392..38020477,-!p1@IKZF3!1.20!14.93!IKZF3;;chr4:57522598..57522664,-!p3@HOPX!1.19!14.48!HOPX;;chr10:35484090..35484104,+!p6@CREM!1.18!14.26!CREM;;chr17:45810594..45810608,+!p1@TBX21!1.17!13.81!TBX21;;chr4:185395633..185395651,-!p2@IRF2!1.16!21.73!IRF2;;chr20:56195525..56195556,-!p2@ZBP1!1.16!13.48!ZBP1;;chr11:128563948..128564003,+!p1@FLI1!1.13!148.18!FLI1;;chr12:56415246..56415286,+!p2@IKZF4!1.13!12.37!IKZF4;;chr16:88752889..88752921,-!p1@SNAI3!1.11!13.81!SNAI3;;chr7:137620650..137620677,-!p3@CREB3L2!1.11!11.92!CREB3L2;;chr7:77428066..77428132,+!p2@PHTF2!1.10!74.65!PHTF2;;chr19:36204309..36204335,+!p1@ZBTB32!1.10!11.70!ZBTB32;;chr4:57522166..57522260,-!p2@HOPX!1.09!13.15!HOPX;;chr16:79633894..79633954,-!p3@MAF!1.03!19.16!MAF;;chr3:141105705..141105770,+!p4@ZBTB38!1.02!11.48!ZBTB38;;chr19:19779686..19779697,+!p3@ZNF101!1.02!11.03!ZNF101;;chr17:37934280..37934299,-!p6@IKZF3!1.02!9.58!IKZF3;;chr1:158978768..158978800,+!p8@IFI16!1.02!9.47!IFI16;;chr6:106546834..106546850,+!p4@PRDM1!1.01!9.25!PRDM1;;chr1:23857698..23857733,-!p1@E2F2!1.00!16.82!E2F2;;chr6:106546731..106546755,+!p5@PRDM1!1.00!9.02!PRDM1;;chr11:47236584..47236679,+!p1@DDB2!0.99!97.48!DDB2;;chr10:35484804..35484902,+!p2@CREM!0.99!34.65!CREM;;chrY:2803415..2803468,+!p1@ZFY!0.97!8.36!ZFY;;chr16:79634581..79634592,-!p4@MAF!0.97!8.24!MAF;;chr6:45390300..45390335,+!p4@RUNX2!0.96!12.92!RUNX2;;chr10:8097321..8097348,+!p4@GATA3!0.96!8.02!GATA3;;chr12:56415287..56415300,+!p5@IKZF4!0.94!7.69!IKZF4;;chr10:104154246..104154347,+!p3@NFKB2!0.93!48.24!NFKB2;;chr19:4153613..4153652,+!p1@CREB3L3!0.93!7.58!CREB3L3;;chr2:231090344..231090361,-!p3@SP110!0.93!7.46!SP110;;chr17:38020516..38020544,-!p5@IKZF3!0.92!7.35!IKZF3;;chr1:92949331..92949377,-!p2@GFI1!0.92!7.24!GFI1;;chr11:128392085..128392232,-!p1@ETS1!0.91!250.12!ETS1;;chr6:45390269..45390298,+!p5@RUNX2!0.91!12.03!RUNX2;;chr10:8100691..8100732,+!p5@GATA3!0.91!7.13!GATA3;;chr7:137620684..137620711,-!p4@CREB3L2!0.90!7.02!CREB3L2;;chr21:36421147..36421193,-!p10@RUNX1!0.90!7.02!RUNX1;;chr6:106547079..106547114,+!p9@PRDM1!0.90!6.91!PRDM1;;chr1:158979686..158979745,+!p1@IFI16!0.89!235.52!IFI16;;chr20:52226313..52226350,-!p3@ZNF217!0.89!6.80!ZNF217;;chr1:25291475..25291511,-!p2@RUNX3!0.89!6.68!RUNX3;;chr2:242556880..242556899,-!p5@THAP4!0.89!6.68!THAP4;;chr6:15249128..15249177,+!p4@JARID2!0.88!12.26!JARID2;;chr4:57522513..57522548,-!p4@HOPX!0.88!6.57!HOPX;;chr6:106534230..106534254,+!p2@PRDM1!0.87!16.71!PRDM1;;chr6:106546786..106546802,+!p6@PRDM1!0.87!6.46!PRDM1;;chr2:242556900..242556916,-!p6@THAP4!0.87!6.35!THAP4;;chr10:35416142..35416169,+!p3@CREM!0.86!17.38!CREM;;chr4:185395590..185395627,-!p3@IRF2!0.85!7.69!IRF2;;chr16:88752861..88752884,-!p2@SNAI3!0.85!6.13!SNAI3;;chr7:64838786..64838809,+!p2@ZNF92!0.84!35.65!ZNF92;;chr2:238600933..238600985,+!p3@LRRFIP1!0.84!34.31!LRRFIP1;;chr21:36421535..364216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| ||
|fantom_cat=http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000084;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000542;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000624;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000738;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000789;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000893;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000988 | |||
|fonse_cell_line= | |fonse_cell_line= | ||
|fonse_cell_line_closure= | |fonse_cell_line_closure= | ||
Line 37: | Line 41: | ||
|fonse_treatment_closure=EFO:0000369,FF:0000409,FF:0011127,FF:11794-124C3 | |fonse_treatment_closure=EFO:0000369,FF:0000409,FF:0011127,FF:11794-124C3 | ||
|has_quality= | |has_quality= | ||
|hg19bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/CD4%252bCD25%252bCD45RA-%2520memory%2520regulatory%2520T%2520cells%2520expanded%252c%2520donor1.CNhs13204.11794-124C3.hg19.nobarcode.bam | |||
|hg19ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/CD4%252bCD25%252bCD45RA-%2520memory%2520regulatory%2520T%2520cells%2520expanded%252c%2520donor1.CNhs13204.11794-124C3.hg19.ctss.bed.gz | |||
|hg19fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/CD4%252bCD25%252bCD45RA-%2520memory%2520regulatory%2520T%2520cells%2520expanded%252c%2520donor1.CNhs13204.11794-124C3.hg19.nobarcode.rdna.fa.gz | |||
|hg38bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.hCAGE/CD4%252bCD25%252bCD45RA-%2520memory%2520regulatory%2520T%2520cells%2520expanded%252c%2520donor1.CNhs13204.11794-124C3.hg38.nobarcode.bam | |||
|hg38ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.hCAGE/CD4%252bCD25%252bCD45RA-%2520memory%2520regulatory%2520T%2520cells%2520expanded%252c%2520donor1.CNhs13204.11794-124C3.hg38.nobarcode.ctss.bed.gz | |||
|id=FF:11794-124C3 | |id=FF:11794-124C3 | ||
|is_a=EFO:0002091;;FF:0000002;;FF:0000210 | |is_a=EFO:0002091;;FF:0000002;;FF:0000210 | ||
|is_obsolete= | |is_obsolete= | ||
|library_id=CNhs13204 | |||
|library_id_phase_based=2:CNhs13204 | |||
|microRNAs= | |||
|microRNAs_nn= | |||
|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/human#cage;sample;11794 | |||
|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/human#cage;sample;11794 | |||
|name=CD4+CD25+CD45RA- memory regulatory T cells expanded, donor1 | |name=CD4+CD25+CD45RA- memory regulatory T cells expanded, donor1 | ||
|namespace= | |namespace= | ||
Line 45: | Line 60: | ||
|profile_cagescan=,,, | |profile_cagescan=,,, | ||
|profile_hcage=CNhs13204,LSID1004,release012,COMPLETED | |profile_hcage=CNhs13204,LSID1004,release012,COMPLETED | ||
|profile_rnaseq= | |profile_rnaseq= | ||
|profile_srnaseq=,,, | |profile_srnaseq=,,, | ||
|refex=http://refex.dbcls.jp/genelist.php?lang | |||
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Line 62: | Line 78: | ||
|rna_weight_ug=2.6264 | |rna_weight_ug=2.6264 | ||
|sample_age=25 | |sample_age=25 | ||
|sample_category=primary cells | |||
|sample_cell_catalog= | |sample_cell_catalog= | ||
|sample_cell_line= | |sample_cell_line= | ||
Line 83: | Line 100: | ||
|top_motifs=ELF1,2,4:2.70713384353;RORA:2.3790926365;TLX2:2.37136343263;RUNX1..3:2.2800733944;PAX3,7:2.11491607954;CDX1,2,4:1.95886148893;ETS1,2:1.7268872553;CRX:1.52258056396;SPI1:1.40076504014;FOX{F1,F2,J1}:1.39435095178;DMAP1_NCOR{1,2}_SMARC:1.2772753079;IRF1,2:1.22431560527;STAT5{A,B}:1.12567238121;GATA6:1.12552215;ELK1,4_GABP{A,B1}:1.09435488405;ZBTB16:1.08004808937;NANOG{mouse}:1.04612546842;SPIB:1.01051905103;BPTF:0.946937194648;PDX1:0.942583235023;YY1:0.94010229007;HMX1:0.896414344318;FOX{D1,D2}:0.883233264108;PBX1:0.876542556336;POU1F1:0.829770328509;STAT1,3:0.81413132858;ATF5_CREB3:0.800048849244;RFX2..5_RFXANK_RFXAP:0.789287566592;PAX4:0.785126889358;NFATC1..3:0.783080390988;STAT2,4,6:0.772816617673;FOXO1,3,4:0.770020640301;POU2F1..3:0.734607132369;T:0.729701892903;CREB1:0.635567720363;TGIF1:0.635327841773;NKX2-2,8:0.611663915648;MYOD1:0.576061068118;E2F1..5:0.543664876304;NFY{A,B,C}:0.524999363808;NFKB1_REL_RELA:0.508435734117;AIRE:0.493332746208;FOXN1:0.490725993686;RXR{A,B,G}_{NR1H2,PPAR}dimers:0.480761431929;IKZF2:0.47712280311;IRF7:0.455719273869;NKX6-1,2:0.437973987629;LEF1_TCF7_TCF7L1,2:0.388716020334;NKX3-1:0.383186791724;MYB:0.38100446227;SNAI1..3:0.379617690464;ZEB1:0.371748937082;PAX2:0.322155963005;BREu{core}:0.309105834576;LMO2:0.268039619035;SPZ1:0.242455314743;HES1:0.23039306157;NFE2L1:0.216252116423;SREBF1,2:0.213792859368;JUN:0.187845835436;FOXM1:0.181061009442;TAL1_TCF{3,4,12}:0.177351849465;CUX2:0.154456010828;FOXA2:0.151226067035;EP300:0.133216019506;NRF1:0.129049656752;PITX1..3:0.0536442136333;SOX5:0.0524078154072;PAX8:0.046409354952;NFIL3:0.0379633869198;FOXP3:0.0207841078289;ZNF423:0.00961277814015;ATF4:0.00612130073545;DBP:-0.0153211481582;ATF6:-0.0337927661533;ZNF143:-0.0681035400153;OCT4_SOX2{dimer}:-0.0697146193049;FOX{I1,J2}:-0.102274248222;FOXP1:-0.104911695683;GFI1:-0.112128508695;EVI1:-0.119249062881;GLI1..3:-0.121687145126;NR5A1,2:-0.13952724023;NFIX:-0.14970323709;ZNF148:-0.155655772952;ZNF384:-0.174518456938;RXRA_VDR{dimer}:-0.185850573085;SMAD1..7,9:-0.187830049609;HOX{A6,A7,B6,B7}:-0.247293709504;HNF4A_NR2F1,2:-0.252656709102;RFX1:-0.258655259757;GCM1,2:-0.259309052902;ATF2:-0.266157369761;MYFfamily:-0.271680661269;AHR_ARNT_ARNT2:-0.278419944683;SRF:-0.285101098452;FOXQ1:-0.318913731509;ALX1:-0.334102065826;ARID5B:-0.342955148748;BACH2:-0.378243737261;NFE2L2:-0.396003890289;FOSL2:-0.397133318305;AR:-0.40495069907;NFE2:-0.407643967502;MAFB:-0.41455495091;FOS_FOS{B,L1}_JUN{B,D}:-0.416220872546;PRRX1,2:-0.421626704854;TP53:-0.428522178157;CEBPA,B_DDIT3:-0.440486337273;ESRRA:-0.444390438425;HAND1,2:-0.466940191094;HNF1A:-0.47036218338;SOX2:-0.477746705711;TFCP2:-0.477986711238;HMGA1,2:-0.487176897971;HIF1A:-0.496543468992;NHLH1,2:-0.503876711095;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:-0.506617742994;NR3C1:-0.521898693279;RREB1:-0.525718758987;ESR1:-0.533726536869;TFDP1:-0.594219713783;VSX1,2:-0.595435341592;HSF1,2:-0.629060474131;HOXA9_MEIS1:-0.641817955165;POU5F1:-0.659915250356;POU3F1..4:-0.673710406125;HLF:-0.702289557076;FOXD3:-0.717831502643;PAX5:-0.723105610862;UFEwm:-0.745210722415;NR1H4:-0.746663230442;TFAP4:-0.747317699355;ZNF238:-0.77279581334;NANOG:-0.787450613697;REST:-0.799064160171;ONECUT1,2:-0.802182713502;NKX2-1,4:-0.819470737093;NKX2-3_NKX2-5:-0.821084364365;PPARG:-0.829862977082;PAX6:-0.852830133155;ZBTB6:-0.856945195312;ALX4:-0.863863716103;SOX{8,9,10}:-0.866023293187;MYBL2:-0.880405903724;MED-1{core}:-0.896563594838;ADNP_IRX_SIX_ZHX:-0.951141404187;SOX17:-1.01474199561;TOPORS:-1.01568081592;MZF1:-1.03979913333;PRDM1:-1.04394068884;EBF1:-1.0493697009;HBP1_HMGB_SSRP1_UBTF:-1.05473330708;NR6A1:-1.06405306395;MEF2{A,B,C,D}:-1.09521947647;MAZ:-1.09707171024;bHLH_family:-1.1432213549;HOX{A5,B5}:-1.17960672024;LHX3,4:-1.20488907723;ZFP161:-1.21088917074;GFI1B:-1.21952407596;MTE{core}:-1.24570627687;EN1,2:-1.25490292658;TBX4,5:-1.26187467348;XCPE1{core}:-1.27072391187;RBPJ:-1.28920701282;GATA4:-1.29444561378;CDC5L:-1.30755232345;TBP:-1.32054133862;KLF4:-1.32717974825;GTF2I:-1.33085310485;EGR1..3:-1.37043959213;MTF1:-1.38975388752;PATZ1:-1.39455754166;ZIC1..3:-1.39473244735;GZF1:-1.41840587863;TFAP2{A,C}:-1.51875361164;HIC1:-1.53840531412;TEF:-1.54709985557;TFAP2B:-1.58211329162;GTF2A1,2:-1.62624911048;PAX1,9:-1.63404276433;TEAD1:-1.67699438858;RXR{A,B,G}:-1.69331628058;HOX{A4,D4}:-1.73793308346;NKX3-2:-1.77860980845;TLX1..3_NFIC{dimer}:-1.78027292441;SP1:-1.839077032;IKZF1:-1.95689604558;POU6F1:-2.02298144661;XBP1:-2.02630679428;FOXL1:-2.20002231064 | |top_motifs=ELF1,2,4:2.70713384353;RORA:2.3790926365;TLX2:2.37136343263;RUNX1..3:2.2800733944;PAX3,7:2.11491607954;CDX1,2,4:1.95886148893;ETS1,2:1.7268872553;CRX:1.52258056396;SPI1:1.40076504014;FOX{F1,F2,J1}:1.39435095178;DMAP1_NCOR{1,2}_SMARC:1.2772753079;IRF1,2:1.22431560527;STAT5{A,B}:1.12567238121;GATA6:1.12552215;ELK1,4_GABP{A,B1}:1.09435488405;ZBTB16:1.08004808937;NANOG{mouse}:1.04612546842;SPIB:1.01051905103;BPTF:0.946937194648;PDX1:0.942583235023;YY1:0.94010229007;HMX1:0.896414344318;FOX{D1,D2}:0.883233264108;PBX1:0.876542556336;POU1F1:0.829770328509;STAT1,3:0.81413132858;ATF5_CREB3:0.800048849244;RFX2..5_RFXANK_RFXAP:0.789287566592;PAX4:0.785126889358;NFATC1..3:0.783080390988;STAT2,4,6:0.772816617673;FOXO1,3,4:0.770020640301;POU2F1..3:0.734607132369;T:0.729701892903;CREB1:0.635567720363;TGIF1:0.635327841773;NKX2-2,8:0.611663915648;MYOD1:0.576061068118;E2F1..5:0.543664876304;NFY{A,B,C}:0.524999363808;NFKB1_REL_RELA:0.508435734117;AIRE:0.493332746208;FOXN1:0.490725993686;RXR{A,B,G}_{NR1H2,PPAR}dimers:0.480761431929;IKZF2:0.47712280311;IRF7:0.455719273869;NKX6-1,2:0.437973987629;LEF1_TCF7_TCF7L1,2:0.388716020334;NKX3-1:0.383186791724;MYB:0.38100446227;SNAI1..3:0.379617690464;ZEB1:0.371748937082;PAX2:0.322155963005;BREu{core}:0.309105834576;LMO2:0.268039619035;SPZ1:0.242455314743;HES1:0.23039306157;NFE2L1:0.216252116423;SREBF1,2:0.213792859368;JUN:0.187845835436;FOXM1:0.181061009442;TAL1_TCF{3,4,12}:0.177351849465;CUX2:0.154456010828;FOXA2:0.151226067035;EP300:0.133216019506;NRF1:0.129049656752;PITX1..3:0.0536442136333;SOX5:0.0524078154072;PAX8:0.046409354952;NFIL3:0.0379633869198;FOXP3:0.0207841078289;ZNF423:0.00961277814015;ATF4:0.00612130073545;DBP:-0.0153211481582;ATF6:-0.0337927661533;ZNF143:-0.0681035400153;OCT4_SOX2{dimer}:-0.0697146193049;FOX{I1,J2}:-0.102274248222;FOXP1:-0.104911695683;GFI1:-0.112128508695;EVI1:-0.119249062881;GLI1..3:-0.121687145126;NR5A1,2:-0.13952724023;NFIX:-0.14970323709;ZNF148:-0.155655772952;ZNF384:-0.174518456938;RXRA_VDR{dimer}:-0.185850573085;SMAD1..7,9:-0.187830049609;HOX{A6,A7,B6,B7}:-0.247293709504;HNF4A_NR2F1,2:-0.252656709102;RFX1:-0.258655259757;GCM1,2:-0.259309052902;ATF2:-0.266157369761;MYFfamily:-0.271680661269;AHR_ARNT_ARNT2:-0.278419944683;SRF:-0.285101098452;FOXQ1:-0.318913731509;ALX1:-0.334102065826;ARID5B:-0.342955148748;BACH2:-0.378243737261;NFE2L2:-0.396003890289;FOSL2:-0.397133318305;AR:-0.40495069907;NFE2:-0.407643967502;MAFB:-0.41455495091;FOS_FOS{B,L1}_JUN{B,D}:-0.416220872546;PRRX1,2:-0.421626704854;TP53:-0.428522178157;CEBPA,B_DDIT3:-0.440486337273;ESRRA:-0.444390438425;HAND1,2:-0.466940191094;HNF1A:-0.47036218338;SOX2:-0.477746705711;TFCP2:-0.477986711238;HMGA1,2:-0.487176897971;HIF1A:-0.496543468992;NHLH1,2:-0.503876711095;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:-0.506617742994;NR3C1:-0.521898693279;RREB1:-0.525718758987;ESR1:-0.533726536869;TFDP1:-0.594219713783;VSX1,2:-0.595435341592;HSF1,2:-0.629060474131;HOXA9_MEIS1:-0.641817955165;POU5F1:-0.659915250356;POU3F1..4:-0.673710406125;HLF:-0.702289557076;FOXD3:-0.717831502643;PAX5:-0.723105610862;UFEwm:-0.745210722415;NR1H4:-0.746663230442;TFAP4:-0.747317699355;ZNF238:-0.77279581334;NANOG:-0.787450613697;REST:-0.799064160171;ONECUT1,2:-0.802182713502;NKX2-1,4:-0.819470737093;NKX2-3_NKX2-5:-0.821084364365;PPARG:-0.829862977082;PAX6:-0.852830133155;ZBTB6:-0.856945195312;ALX4:-0.863863716103;SOX{8,9,10}:-0.866023293187;MYBL2:-0.880405903724;MED-1{core}:-0.896563594838;ADNP_IRX_SIX_ZHX:-0.951141404187;SOX17:-1.01474199561;TOPORS:-1.01568081592;MZF1:-1.03979913333;PRDM1:-1.04394068884;EBF1:-1.0493697009;HBP1_HMGB_SSRP1_UBTF:-1.05473330708;NR6A1:-1.06405306395;MEF2{A,B,C,D}:-1.09521947647;MAZ:-1.09707171024;bHLH_family:-1.1432213549;HOX{A5,B5}:-1.17960672024;LHX3,4:-1.20488907723;ZFP161:-1.21088917074;GFI1B:-1.21952407596;MTE{core}:-1.24570627687;EN1,2:-1.25490292658;TBX4,5:-1.26187467348;XCPE1{core}:-1.27072391187;RBPJ:-1.28920701282;GATA4:-1.29444561378;CDC5L:-1.30755232345;TBP:-1.32054133862;KLF4:-1.32717974825;GTF2I:-1.33085310485;EGR1..3:-1.37043959213;MTF1:-1.38975388752;PATZ1:-1.39455754166;ZIC1..3:-1.39473244735;GZF1:-1.41840587863;TFAP2{A,C}:-1.51875361164;HIC1:-1.53840531412;TEF:-1.54709985557;TFAP2B:-1.58211329162;GTF2A1,2:-1.62624911048;PAX1,9:-1.63404276433;TEAD1:-1.67699438858;RXR{A,B,G}:-1.69331628058;HOX{A4,D4}:-1.73793308346;NKX3-2:-1.77860980845;TLX1..3_NFIC{dimer}:-1.78027292441;SP1:-1.839077032;IKZF1:-1.95689604558;POU6F1:-2.02298144661;XBP1:-2.02630679428;FOXL1:-2.20002231064 | ||
|xref= | |xref= | ||
|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_human;search_select_hide=table111:FF:11794-124C3;search_select_hide=table117:FF:11794-124C3 | |||
}} | }} |
Latest revision as of 18:20, 4 June 2020
Name: | CD4+CD25+CD45RA- memory regulatory T cells expanded, donor1 |
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Species: | Human (Homo sapiens) |
Library ID: | CNhs13204 |
Sample type: | primary cells |
Genomic View: | UCSC |
RefEX: | Specific genes |
FANTOM CAT: | 1, 2, 3, 4, 5, 6, 7 |
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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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: CNhs13204
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: CNhs13204
Novel motif | Logo | P-value |
---|---|---|
1 | 1 | 0.131 |
10 | 10 | 0.0149 |
100 | 100 | 0.811 |
101 | 101 | 0.22 |
102 | 102 | 0.575 |
103 | 103 | 0.0787 |
104 | 104 | 0.673 |
105 | 105 | 0.14 |
106 | 106 | 0.349 |
107 | 107 | 0.399 |
108 | 108 | 0.663 |
109 | 109 | 0.0409 |
11 | 11 | 0.027 |
110 | 110 | 0.456 |
111 | 111 | 0.279 |
112 | 112 | 0.0682 |
113 | 113 | 0.575 |
114 | 114 | 0.102 |
115 | 115 | 0.341 |
116 | 116 | 0.789 |
117 | 117 | 0.00275 |
118 | 118 | 0.372 |
119 | 119 | 0.715 |
12 | 12 | 0.439 |
120 | 120 | 0.205 |
121 | 121 | 0.4 |
122 | 122 | 0.21 |
123 | 123 | 0.0118 |
124 | 124 | 0.14 |
125 | 125 | 0.783 |
126 | 126 | 0.208 |
127 | 127 | 0.362 |
128 | 128 | 0.725 |
129 | 129 | 0.329 |
13 | 13 | 0.487 |
130 | 130 | 0.88 |
131 | 131 | 0.805 |
132 | 132 | 0.821 |
133 | 133 | 0.35 |
134 | 134 | 0.843 |
135 | 135 | 0.638 |
136 | 136 | 0.591 |
137 | 137 | 0.0237 |
138 | 138 | 0.146 |
139 | 139 | 0.112 |
14 | 14 | 0.309 |
140 | 140 | 0.0705 |
141 | 141 | 0.478 |
142 | 142 | 0.941 |
143 | 143 | 2.59906e-4 |
144 | 144 | 0.419 |
145 | 145 | 0.261 |
146 | 146 | 0.58 |
147 | 147 | 0.0346 |
148 | 148 | 0.0462 |
149 | 149 | 0.804 |
15 | 15 | 0.086 |
150 | 150 | 0.452 |
151 | 151 | 0.649 |
152 | 152 | 0.717 |
153 | 153 | 0.883 |
154 | 154 | 0.789 |
155 | 155 | 0.029 |
156 | 156 | 0.608 |
157 | 157 | 0.0683 |
158 | 158 | 0.431 |
159 | 159 | 0.273 |
16 | 16 | 0.475 |
160 | 160 | 0.558 |
161 | 161 | 0.229 |
162 | 162 | 0.0848 |
163 | 163 | 0.536 |
164 | 164 | 0.145 |
165 | 165 | 0.244 |
166 | 166 | 0.659 |
167 | 167 | 0.562 |
168 | 168 | 0.258 |
169 | 169 | 0.22 |
17 | 17 | 0.826 |
18 | 18 | 0.383 |
19 | 19 | 0.779 |
2 | 2 | 0.911 |
20 | 20 | 0.742 |
21 | 21 | 0.461 |
22 | 22 | 0.965 |
23 | 23 | 0.803 |
24 | 24 | 0.729 |
25 | 25 | 0.0701 |
26 | 26 | 0.114 |
27 | 27 | 0.14 |
28 | 28 | 0.426 |
29 | 29 | 0.00715 |
3 | 3 | 0.0381 |
30 | 30 | 0.224 |
31 | 31 | 0.996 |
32 | 32 | 0.55 |
33 | 33 | 0.411 |
34 | 34 | 0.951 |
35 | 35 | 0.194 |
36 | 36 | 0.0212 |
37 | 37 | 0.129 |
38 | 38 | 0.648 |
39 | 39 | 0.409 |
4 | 4 | 0.961 |
40 | 40 | 0.293 |
41 | 41 | 0.355 |
42 | 42 | 0.0631 |
43 | 43 | 0.34 |
44 | 44 | 0.228 |
45 | 45 | 0.667 |
46 | 46 | 0.0771 |
47 | 47 | 0.00567 |
48 | 48 | 0.0393 |
49 | 49 | 0.209 |
5 | 5 | 0.448 |
50 | 50 | 0.66 |
51 | 51 | 0.527 |
52 | 52 | 0.332 |
53 | 53 | 0.468 |
54 | 54 | 0.8 |
55 | 55 | 0.73 |
56 | 56 | 0.484 |
57 | 57 | 0.43 |
58 | 58 | 0.094 |
59 | 59 | 0.171 |
6 | 6 | 0.739 |
60 | 60 | 0.385 |
61 | 61 | 0.0999 |
62 | 62 | 0.0364 |
63 | 63 | 0.645 |
64 | 64 | 0.159 |
65 | 65 | 0.816 |
66 | 66 | 0.952 |
67 | 67 | 0.71 |
68 | 68 | 0.762 |
69 | 69 | 0.798 |
7 | 7 | 0.244 |
70 | 70 | 0.0265 |
71 | 71 | 0.0191 |
72 | 72 | 0.016 |
73 | 73 | 0.359 |
74 | 74 | 0.297 |
75 | 75 | 0.0185 |
76 | 76 | 0.412 |
77 | 77 | 0.721 |
78 | 78 | 0.0492 |
79 | 79 | 0.488 |
8 | 8 | 0.544 |
80 | 80 | 0.0271 |
81 | 81 | 0.352 |
82 | 82 | 0.0548 |
83 | 83 | 0.912 |
84 | 84 | 0.264 |
85 | 85 | 0.731 |
86 | 86 | 0.13 |
87 | 87 | 0.191 |
88 | 88 | 0.683 |
89 | 89 | 0.931 |
9 | 9 | 0.586 |
90 | 90 | 0.034 |
91 | 91 | 0.562 |
92 | 92 | 0.388 |
93 | 93 | 0.29 |
94 | 94 | 0.0985 |
95 | 95 | 0.0146 |
96 | 96 | 0.0351 |
97 | 97 | 0.324 |
98 | 98 | 0.35 |
99 | 99 | 0.0399 |
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: CNhs13204
FANTOM5 (FF) ontology
Direct parent terms
is_a relathionship
EFO:0002091 biological replicate
FF:0000002 in vivo cell sample
FF:0000210 human 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
FF: FANTOM5
0000102 (sample by type)
0000210 (human sample)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000001 (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
NA