FF:11385-118B8: Difference between revisions
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{{f5samples | {{f5samples | ||
|DRA_sample_Accession=CAGE@ | |DRA_sample_Accession=CAGE@SAMD00005406 | ||
|accession_numbers=CAGE;DRX008074;DRR008946;DRZ000371;DRZ001756 | |accession_numbers=CAGE;DRX008074;DRR008946;DRZ000371;DRZ001756;DRZ011721;DRZ013106 | ||
|ancestors_in_anatomy_facet= | |ancestors_in_anatomy_facet= | ||
|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000988,CL:0000548,CL:0002371,CL:0000219,CL:0000738,CL:0000255,CL:0000451,CL:0000784 | |ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000988,CL:0000548,CL:0002371,CL:0000219,CL:0000738,CL:0000255,CL:0000451,CL:0000784 | ||
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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=chr16:85932760..85932775,+!p1@IRF8!3.26!1824.23!IRF8;;chr6:391743..391759,+!p1@IRF4!3.24!1732.11!IRF4;;chr19:50922187..50922204,+!p1@SPIB!2.37!234.02!SPIB;;chr2:68592406..68592424,+!p1@PLEK!2.11!129.27!PLEK;;chr18:53257001..53257015,-!p5@TCF4!1.96!151.18!TCF4;;chr6:45390599..45390662,+!p11@RUNX2!1.94!102.89!RUNX2;;chr2:100759010..100759035,-!p1@AFF3!1.92!82.84!AFF3;;chr8:135614120..135614149,-!p5@ZFAT!1.92!81.35!ZFAT;;chr1:244214577..244214593,+!p1@ZNF238!1.91!80.23!ZNF238;;chr11:615942..615957,-!p1@IRF7!1.84!609.93!IRF7;;chr16:85936412..85936431,+!p2@IRF8!1.82!64.63!IRF8;;chr8:135613849..135613883,-!p7@ZFAT!1.81!63.89!ZFAT;;chr19:12721790..12721810,+!p2@ZNF791!1.78!156.01!ZNF791;;chr8:135614084..135614119,-!p4@ZFAT!1.78!59.43!ZFAT;;chr2:68592394..68592405,+!p2@PLEK!1.72!52.00!PLEK;;chr2:100759037..100759058,-!p2@AFF3!1.72!51.63!AFF3;;chr6:45390300..45390335,+!p4@RUNX2!1.71!77.26!RUNX2;;chr7:50344289..50344323,+!p1@IKZF1!1.71!50.52!IKZF1;;chr7:50343634..50343717,+!p2@IKZF1!1.70!49.40!IKZF1;;chr19:54041669..54041697,+!p2@ZNF331!1.69!47.55!ZNF331;;chr18:53253297..53253322,-!p30@TCF4!1.67!45.69!TCF4;;chr5:142782823..142782854,-!p3@NR3C1!1.66!62.78!NR3C1;;chr7:50344251..50344288,+!p3@IKZF1!1.63!41.97!IKZF1;;chr1:244214611..244214624,+!p4@ZNF238!1.59!37.89!ZNF238;;chr6:135502501..135502546,+!p1@MYB!1.56!42.35!MYB;;chr18:53255839..53255854,-!p13@TCF4!1.55!40.86!TCF4;;chr6:135502408..135502459,+!p2@MYB!1.53!37.89!MYB;;chr1:244214655..244214666,+!p7@ZNF238!1.53!32.69!ZNF238;;chr9:102584262..102584276,+!p1@NR4A3!1.52!70.58!NR4A3;;chr6:45390269..45390298,+!p5@RUNX2!1.50!49.78!RUNX2;;chr19:54058073..54058088,+!p1@ZNF331!1.50!30.46!ZNF331;;chr13:72441315..72441454,-!p1@DACH1!1.49!57.95!DACH1;;chr5:142814241..142814278,-!p12@NR3C1!1.49!30.09!NR3C1;;chr11:47400078..47400106,-!p1@SPI1!1.48!29.35!SPI1;;chr5:88178983..88179012,-!p1@MEF2C!1.47!209.87!MEF2C;;chr8:135613895..135613921,-!p8@ZFAT!1.43!25.63!ZFAT;;chr19:36391434..36391450,-!p1@NFKBID!1.42!49.03!NFKBID;;chr12:111537227..111537239,+!p7@CUX2!1.40!24.14!CUX2;;chr1:92949331..92949377,-!p2@GFI1!1.38!23.03!GFI1;;chr15:31619140..31619152,+!p11@KLF13!1.36!21.92!KLF13;;chrX:129244430..129244442,-!p5@ELF4!1.32!20.06!ELF4;;chr2:145277640..145277771,-!p1@ZEB2!1.30!245.90!ZEB2;;chr7:104654690..104654704,+!p2@MLL5!1.30!37.15!MLL5;;chr2:97202480..97202499,+!p1@ARID5A!1.29!183.13!ARID5A;;chr18:53255415..53255491,-!p1@TCF4!1.29!154.53!TCF4;;chr10:35484053..35484076,+!p1@CREM!1.29!45.32!CREM;;chr2:60778035..60778060,-!p4@BCL11A!1.28!21.54!BCL11A;;chr2:60781201..60781258,-!p3@BCL11A!1.27!17.83!BCL11A;;chr9:117150254..117150271,-!p1@AKNA!1.25!44.95!AKNA;;chr1:40367530..40367597,-!p1@MYCL1!1.25!30.46!MYCL1;;chr18:53253077..53253100,-!p46@TCF4!1.25!16.72!TCF4;;chr2:100758991..100759009,-!p3@AFF3!1.24!16.34!AFF3;;chr7:104654718..104654741,+!p3@MLL5!1.23!23.40!MLL5;;chr1:92950138..92950159,-!p4@GFI1!1.23!15.97!GFI1;;chr9:102584241..102584261,+!p4@NR4A3!1.22!24.14!NR4A3;;chr2:192015701..192015743,-!p1@STAT4!1.22!21.17!STAT4;;chr13:72441074..72441172,-!p2@DACH1!1.22!15.60!DACH1;;chr7:127032330..127032356,-!p3@ZNF800!1.21!19.32!ZNF800;;chr5:142782862..142782881,-!p11@NR3C1!1.21!15.23!NR3C1;;chr16:85936539..85936562,+!p3@IRF8!1.21!15.23!IRF8;;chr6:45390442..45390479,+!p8@RUNX2!1.20!22.66!RUNX2;;chr15:31619200..31619211,+!p12@KLF13!1.20!15.97!KLF13;;chr6:44233252..44233296,-!p1@NFKBIE!1.19!140.41!NFKBIE;;chr6:12008986..12009016,+!p3@HIVEP1!1.19!45.32!HIVEP1;;chr6:12009042..12009092,+!p6@HIVEP1!1.19!18.94!HIVEP1;;chr2:61108695..61108753,+!p1@REL!1.18!96.21!REL;;chr18:52989565..52989623,-!p9@TCF4!1.18!18.20!TCF4;;chr1:168195229..168195294,+!p1@SFT2D2,p1@TBX19!1.17!603.99!TBX19;;chr3:18486354..18486377,-!p2@SATB1!1.16!16.72!SATB1;;chr8:86089627..86089653,+!p3@E2F5!1.16!15.23!E2F5;;chrX:2418949..2419024,-!p1@DHRSX,p1@ZBED1!1.16!13.37!ZBED1;;chr14:74226961..74227020,-!p1@C14orf43!1.13!82.09!C14orf43;;chr18:53257027..53257052,-!p3@TCF4!1.13!50.15!TCF4;;chr10:104154415..104154434,+!p5@NFKB2!1.13!12.63!NFKB2;;chr2:61108878..61108891,+!p5@REL!1.13!12.63!REL;;chr12:11802753..11802834,+!p2@ETV6!1.12!60.18!ETV6;;chr2:60781148..60781159,-!p8@BCL11A!1.12!12.26!BCL11A;;chr18:53256971..53256984,-!p26@TCF4!1.12!12.26!TCF4;;chr6:45296048..45296082,+!p1@RUNX2!1.11!13.74!RUNX2;;chr4:106068026..106068084,+!p1@TET2!1.10!104.38!TET2;;chr1:156470515..156470542,-!p2@MEF2D!1.10!61.29!MEF2D;;chr3:48282587..48282603,+!p1@ZNF589!1.10!51.63!ZNF589;;chr15:74833584..74833626,+!p1@ARID3B!1.10!27.12!ARID3B;;chr1:157108728..157108744,-!p5@ETV3!1.10!11.52!ETV3;;chr4:140005443..140005527,-!p2@ELF2!1.09!67.98!ELF2;;chr16:85936600..85936623,+!p4@IRF8!1.08!11.14!IRF8;;chr18:53253323..53253359,-!p19@TCF4!1.07!10.77!TCF4;;chr9:102584278..102584285,+!p5@NR4A3!1.07!10.77!NR4A3;;chr10:104155480..104155534,+!p2@NFKB2!1.06!68.72!NFKB2;;chr19:54041645..54041661,+!p5@ZNF331!1.06!10.40!ZNF331;;chr1:40367668..40367684,-!p2@MYCL1!1.06!10.40!MYCL1;;chr6:45390399..45390418,+!p15@RUNX2!1.06!10.40!RUNX2;;chr2:174828545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| |expression_enrichment_score=chr16:85932760..85932775,+!p1@IRF8!3.26!1824.23!IRF8;;chr6:391743..391759,+!p1@IRF4!3.24!1732.11!IRF4;;chr19:50922187..50922204,+!p1@SPIB!2.37!234.02!SPIB;;chr2:68592406..68592424,+!p1@PLEK!2.11!129.27!PLEK;;chr18:53257001..53257015,-!p5@TCF4!1.96!151.18!TCF4;;chr6:45390599..45390662,+!p11@RUNX2!1.94!102.89!RUNX2;;chr2:100759010..100759035,-!p1@AFF3!1.92!82.84!AFF3;;chr8:135614120..135614149,-!p5@ZFAT!1.92!81.35!ZFAT;;chr1:244214577..244214593,+!p1@ZNF238!1.91!80.23!ZNF238;;chr11:615942..615957,-!p1@IRF7!1.84!609.93!IRF7;;chr16:85936412..85936431,+!p2@IRF8!1.82!64.63!IRF8;;chr8:135613849..135613883,-!p7@ZFAT!1.81!63.89!ZFAT;;chr19:12721790..12721810,+!p2@ZNF791!1.78!156.01!ZNF791;;chr8:135614084..135614119,-!p4@ZFAT!1.78!59.43!ZFAT;;chr2:68592394..68592405,+!p2@PLEK!1.72!52.00!PLEK;;chr2:100759037..100759058,-!p2@AFF3!1.72!51.63!AFF3;;chr6:45390300..45390335,+!p4@RUNX2!1.71!77.26!RUNX2;;chr7:50344289..50344323,+!p1@IKZF1!1.71!50.52!IKZF1;;chr7:50343634..50343717,+!p2@IKZF1!1.70!49.40!IKZF1;;chr19:54041669..54041697,+!p2@ZNF331!1.69!47.55!ZNF331;;chr18:53253297..53253322,-!p30@TCF4!1.67!45.69!TCF4;;chr5:142782823..142782854,-!p3@NR3C1!1.66!62.78!NR3C1;;chr7:50344251..50344288,+!p3@IKZF1!1.63!41.97!IKZF1;;chr1:244214611..244214624,+!p4@ZNF238!1.59!37.89!ZNF238;;chr6:135502501..135502546,+!p1@MYB!1.56!42.35!MYB;;chr18:53255839..53255854,-!p13@TCF4!1.55!40.86!TCF4;;chr6:135502408..135502459,+!p2@MYB!1.53!37.89!MYB;;chr1:244214655..244214666,+!p7@ZNF238!1.53!32.69!ZNF238;;chr9:102584262..102584276,+!p1@NR4A3!1.52!70.58!NR4A3;;chr6:45390269..45390298,+!p5@RUNX2!1.50!49.78!RUNX2;;chr19:54058073..54058088,+!p1@ZNF331!1.50!30.46!ZNF331;;chr13:72441315..72441454,-!p1@DACH1!1.49!57.95!DACH1;;chr5:142814241..142814278,-!p12@NR3C1!1.49!30.09!NR3C1;;chr11:47400078..47400106,-!p1@SPI1!1.48!29.35!SPI1;;chr5:88178983..88179012,-!p1@MEF2C!1.47!209.87!MEF2C;;chr8:135613895..135613921,-!p8@ZFAT!1.43!25.63!ZFAT;;chr19:36391434..36391450,-!p1@NFKBID!1.42!49.03!NFKBID;;chr12:111537227..111537239,+!p7@CUX2!1.40!24.14!CUX2;;chr1:92949331..92949377,-!p2@GFI1!1.38!23.03!GFI1;;chr15:31619140..31619152,+!p11@KLF13!1.36!21.92!KLF13;;chrX:129244430..129244442,-!p5@ELF4!1.32!20.06!ELF4;;chr2:145277640..145277771,-!p1@ZEB2!1.30!245.90!ZEB2;;chr7:104654690..104654704,+!p2@MLL5!1.30!37.15!MLL5;;chr2:97202480..97202499,+!p1@ARID5A!1.29!183.13!ARID5A;;chr18:53255415..53255491,-!p1@TCF4!1.29!154.53!TCF4;;chr10:35484053..35484076,+!p1@CREM!1.29!45.32!CREM;;chr2:60778035..60778060,-!p4@BCL11A!1.28!21.54!BCL11A;;chr2:60781201..60781258,-!p3@BCL11A!1.27!17.83!BCL11A;;chr9:117150254..117150271,-!p1@AKNA!1.25!44.95!AKNA;;chr1:40367530..40367597,-!p1@MYCL1!1.25!30.46!MYCL1;;chr18:53253077..53253100,-!p46@TCF4!1.25!16.72!TCF4;;chr2:100758991..100759009,-!p3@AFF3!1.24!16.34!AFF3;;chr7:104654718..104654741,+!p3@MLL5!1.23!23.40!MLL5;;chr1:92950138..92950159,-!p4@GFI1!1.23!15.97!GFI1;;chr9:102584241..102584261,+!p4@NR4A3!1.22!24.14!NR4A3;;chr2:192015701..192015743,-!p1@STAT4!1.22!21.17!STAT4;;chr13:72441074..72441172,-!p2@DACH1!1.22!15.60!DACH1;;chr7:127032330..127032356,-!p3@ZNF800!1.21!19.32!ZNF800;;chr5:142782862..142782881,-!p11@NR3C1!1.21!15.23!NR3C1;;chr16:85936539..85936562,+!p3@IRF8!1.21!15.23!IRF8;;chr6:45390442..45390479,+!p8@RUNX2!1.20!22.66!RUNX2;;chr15:31619200..31619211,+!p12@KLF13!1.20!15.97!KLF13;;chr6:44233252..44233296,-!p1@NFKBIE!1.19!140.41!NFKBIE;;chr6:12008986..12009016,+!p3@HIVEP1!1.19!45.32!HIVEP1;;chr6:12009042..12009092,+!p6@HIVEP1!1.19!18.94!HIVEP1;;chr2:61108695..61108753,+!p1@REL!1.18!96.21!REL;;chr18:52989565..52989623,-!p9@TCF4!1.18!18.20!TCF4;;chr1:168195229..168195294,+!p1@SFT2D2,p1@TBX19!1.17!603.99!TBX19;;chr3:18486354..18486377,-!p2@SATB1!1.16!16.72!SATB1;;chr8:86089627..86089653,+!p3@E2F5!1.16!15.23!E2F5;;chrX:2418949..2419024,-!p1@DHRSX,p1@ZBED1!1.16!13.37!ZBED1;;chr14:74226961..74227020,-!p1@C14orf43!1.13!82.09!C14orf43;;chr18:53257027..53257052,-!p3@TCF4!1.13!50.15!TCF4;;chr10:104154415..104154434,+!p5@NFKB2!1.13!12.63!NFKB2;;chr2:61108878..61108891,+!p5@REL!1.13!12.63!REL;;chr12:11802753..11802834,+!p2@ETV6!1.12!60.18!ETV6;;chr2:60781148..60781159,-!p8@BCL11A!1.12!12.26!BCL11A;;chr18:53256971..53256984,-!p26@TCF4!1.12!12.26!TCF4;;chr6:45296048..45296082,+!p1@RUNX2!1.11!13.74!RUNX2;;chr4:106068026..106068084,+!p1@TET2!1.10!104.38!TET2;;chr1:156470515..156470542,-!p2@MEF2D!1.10!61.29!MEF2D;;chr3:48282587..48282603,+!p1@ZNF589!1.10!51.63!ZNF589;;chr15:74833584..74833626,+!p1@ARID3B!1.10!27.12!ARID3B;;chr1:157108728..157108744,-!p5@ETV3!1.10!11.52!ETV3;;chr4:140005443..140005527,-!p2@ELF2!1.09!67.98!ELF2;;chr16:85936600..85936623,+!p4@IRF8!1.08!11.14!IRF8;;chr18:53253323..53253359,-!p19@TCF4!1.07!10.77!TCF4;;chr9:102584278..102584285,+!p5@NR4A3!1.07!10.77!NR4A3;;chr10:104155480..104155534,+!p2@NFKB2!1.06!68.72!NFKB2;;chr19:54041645..54041661,+!p5@ZNF331!1.06!10.40!ZNF331;;chr1:40367668..40367684,-!p2@MYCL1!1.06!10.40!MYCL1;;chr6:45390399..45390418,+!p15@RUNX2!1.06!10.40!RUNX2;;chr2:174828545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| ||
|fantom_cat=http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000222;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000234;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000451;;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:0000738;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000784;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000988;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0002193;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0002390;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0002405 | |||
|ffid_belonging_in_development=CL:0000134 | |ffid_belonging_in_development=CL:0000134 | ||
|fonse_cell_line= | |fonse_cell_line= | ||
Line 40: | Line 42: | ||
|fonse_treatment_closure= | |fonse_treatment_closure= | ||
|has_quality= | |has_quality= | ||
|hg19bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.LQhCAGE/Dendritic%2520Cells%2520-%2520plasmacytoid%252c%2520donor3.CNhs12200.11385-118B8.hg19.nobarcode.bam | |||
|hg19ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.LQhCAGE/Dendritic%2520Cells%2520-%2520plasmacytoid%252c%2520donor3.CNhs12200.11385-118B8.hg19.ctss.bed.gz | |||
|hg19fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.LQhCAGE/Dendritic%2520Cells%2520-%2520plasmacytoid%252c%2520donor3.CNhs12200.11385-118B8.hg19.nobarcode.rdna.fa.gz | |||
|hg38bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.LQhCAGE/Dendritic%2520Cells%2520-%2520plasmacytoid%252c%2520donor3.CNhs12200.11385-118B8.hg38.nobarcode.bam | |||
|hg38ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.LQhCAGE/Dendritic%2520Cells%2520-%2520plasmacytoid%252c%2520donor3.CNhs12200.11385-118B8.hg38.nobarcode.ctss.bed.gz | |||
|id=FF:11385-118B8 | |id=FF:11385-118B8 | ||
|is_a=EFO:0002091;;FF:0000045 | |is_a=EFO:0002091;;FF:0000045 | ||
|is_obsolete= | |is_obsolete= | ||
|library_id=CNhs12200 | |library_id=CNhs12200 | ||
|library_id_phase_based=2:CNhs12200 | |||
|microRNAs= | |||
|microRNAs_nn= | |||
|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/human#cage;sample;11385 | |||
|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/human#cage;sample;11385 | |||
|name=Dendritic Cells - plasmacytoid, donor3 | |name=Dendritic Cells - plasmacytoid, donor3 | ||
|namespace=FANTOM5 | |namespace=FANTOM5 | ||
Line 49: | Line 61: | ||
|profile_cagescan=,,, | |profile_cagescan=,,, | ||
|profile_hcage=CNhs12200,LSID976,release010,COMPLETED | |profile_hcage=CNhs12200,LSID976,release010,COMPLETED | ||
|profile_rnaseq= | |profile_rnaseq= | ||
|profile_srnaseq=,,, | |profile_srnaseq=,,, | ||
|refex=http://refex.dbcls.jp/genelist.php?lang | |||
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| ||
Line 88: | Line 101: | ||
|top_motifs=NANOG{mouse}:2.41180922733;LMO2:2.10762416144;ELF1,2,4:1.79895356081;CREB1:1.63985312305;PAX2:1.59799504592;PAX6:1.58628183383;SPI1:1.56811327435;ATF5_CREB3:1.55339792126;RUNX1..3:1.52442424666;NANOG:1.52280938185;NFKB1_REL_RELA:1.50442318965;NFIL3:1.41512526839;FOXN1:1.34587585484;DMAP1_NCOR{1,2}_SMARC:1.33135834747;RFX2..5_RFXANK_RFXAP:1.33034862454;TGIF1:1.32570674494;SPIB:1.30780362217;EN1,2:1.29857451045;HMX1:1.23000136013;FOXQ1:1.21136900652;ETS1,2:1.20832828161;TLX2:1.17376880174;ELK1,4_GABP{A,B1}:1.1212073221;NHLH1,2:1.05674178052;ATF4:1.04825428739;MYB:0.996268088753;AIRE:0.987668484787;FOX{F1,F2,J1}:0.958747553881;HIF1A:0.958462890387;BREu{core}:0.898852644092;MYOD1:0.868925250884;RORA:0.847216473155;PDX1:0.835584921581;CRX:0.826645070106;MYFfamily:0.773379288669;IRF1,2:0.68237321812;ZEB1:0.632495815521;FOXA2:0.629683803488;POU2F1..3:0.566172469098;BPTF:0.553741803833;TFAP4:0.516025158357;RXRA_VDR{dimer}:0.515533028735;SMAD1..7,9:0.512495556253;ALX1:0.509739620319;NR5A1,2:0.492358619109;FOX{D1,D2}:0.474530280154;SREBF1,2:0.464065146458;PAX3,7:0.455789306487;XBP1:0.439843520816;ESR1:0.436414478634;ESRRA:0.399455387541;EP300:0.378071075664;OCT4_SOX2{dimer}:0.352442235464;ATF6:0.338494593117;ZNF148:0.323225102364;TAL1_TCF{3,4,12}:0.320966316765;MEF2{A,B,C,D}:0.317441970159;PAX8:0.297580174103;FOXD3:0.294027647678;RBPJ:0.26767292937;IRF7:0.264043863668;GATA6:0.257112851364;PPARG:0.254111588869;FOX{I1,J2}:0.247404096628;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:0.241982906479;FOXO1,3,4:0.241266246074;NR6A1:0.218611414018;JUN:0.193088847805;ATF2:0.147485115797;LEF1_TCF7_TCF7L1,2:0.115944975175;MAFB:0.115193171475;SNAI1..3:0.113841119692;ZNF238:0.11186173267;CUX2:0.104791425782;HBP1_HMGB_SSRP1_UBTF:0.10198165223;BACH2:0.0973081545076;YY1:0.0954145198789;HMGA1,2:0.0952664817989;FOSL2:0.0639095619535;SOX2:0.0501435224496;POU5F1:0.0235507338428;HAND1,2:0.0189049558198;CDX1,2,4:0.00746169897165;FOS_FOS{B,L1}_JUN{B,D}:-0.018217850043;STAT1,3:-0.0307135586947;EGR1..3:-0.106261811653;AR:-0.108379213416;PRRX1,2:-0.110170586371;CEBPA,B_DDIT3:-0.116170131369;ZFP161:-0.125399107176;HNF4A_NR2F1,2:-0.147787003571;SOX{8,9,10}:-0.1501123314;NFE2:-0.15151924647;RXR{A,B,G}_{NR1H2,PPAR}dimers:-0.158963745692;HLF:-0.16010017759;CDC5L:-0.225144355278;NFATC1..3:-0.230265232724;NRF1:-0.231549254906;DBP:-0.233489682462;T:-0.233752943822;EVI1:-0.248085692704;NFY{A,B,C}:-0.256494430086;HOXA9_MEIS1:-0.266033310931;HNF1A:-0.287141151135;SOX5:-0.29029688353;HSF1,2:-0.308891925771;TFAP2{A,C}:-0.309798832;MED-1{core}:-0.316968763223;NFIX:-0.324949468307;E2F1..5:-0.334668048645;FOXP3:-0.339925678352;POU1F1:-0.351929364271;ALX4:-0.353661620351;SOX17:-0.379063925905;ZBTB6:-0.379886686347;PAX4:-0.390047205019;NKX2-2,8:-0.397625724955;bHLH_family:-0.411358121535;STAT5{A,B}:-0.414109550213;ZBTB16:-0.436179354001;NKX3-2:-0.439088964409;RFX1:-0.445556263445;NFE2L2:-0.466704333582;FOXP1:-0.474094396429;ZNF143:-0.478236960646;REST:-0.503072108745;STAT2,4,6:-0.515949621627;TFCP2:-0.51612692468;FOXL1:-0.516762854377;NKX2-3_NKX2-5:-0.553952163231;AHR_ARNT_ARNT2:-0.554214245046;PATZ1:-0.555705272393;MZF1:-0.581227095152;HES1:-0.600666911003;HOX{A4,D4}:-0.610720666718;GLI1..3:-0.628053549961;PRDM1:-0.633134102932;PAX5:-0.636321373486;GATA4:-0.638238275302;NR3C1:-0.647481934971;NKX3-1:-0.713400774831;GZF1:-0.714640283921;MTF1:-0.722280842845;PBX1:-0.732116420749;MAZ:-0.760171964046;SPZ1:-0.781276537055;HOX{A6,A7,B6,B7}:-0.786154674971;NKX2-1,4:-0.788135186749;ARID5B:-0.800987849333;HOX{A5,B5}:-0.803506868874;SP1:-0.810239477118;NR1H4:-0.811815744518;RREB1:-0.824269349493;RXR{A,B,G}:-0.827658020507;MTE{core}:-0.831153115363;TP53:-0.838794819237;TBP:-0.867218379889;SRF:-0.877325080015;GTF2A1,2:-0.889841184344;ZNF384:-0.910913527061;LHX3,4:-0.922350152463;HIC1:-0.932613297592;GCM1,2:-0.946801105353;IKZF2:-0.947412652906;TEF:-0.968065871032;MYBL2:-0.969079910674;TFAP2B:-0.977090382798;GFI1:-1.00181465941;POU3F1..4:-1.14773621119;VSX1,2:-1.19964361573;EBF1:-1.20147359058;NKX6-1,2:-1.20530876198;TBX4,5:-1.21809883655;ADNP_IRX_SIX_ZHX:-1.30418788038;NFE2L1:-1.34860658828;TFDP1:-1.36988778508;ONECUT1,2:-1.37420230539;GFI1B:-1.41517358813;TEAD1:-1.43267973393;GTF2I:-1.45859109241;POU6F1:-1.46739940265;UFEwm:-1.47718114504;TOPORS:-1.53113681252;KLF4:-1.55579258653;PITX1..3:-1.60810805939;XCPE1{core}:-1.61039480615;ZIC1..3:-1.63084051036;ZNF423:-1.6819076308;IKZF1:-1.69088130414;TLX1..3_NFIC{dimer}:-1.90133033868;PAX1,9:-2.02954694869;FOXM1:-2.37362433497 | |top_motifs=NANOG{mouse}:2.41180922733;LMO2:2.10762416144;ELF1,2,4:1.79895356081;CREB1:1.63985312305;PAX2:1.59799504592;PAX6:1.58628183383;SPI1:1.56811327435;ATF5_CREB3:1.55339792126;RUNX1..3:1.52442424666;NANOG:1.52280938185;NFKB1_REL_RELA:1.50442318965;NFIL3:1.41512526839;FOXN1:1.34587585484;DMAP1_NCOR{1,2}_SMARC:1.33135834747;RFX2..5_RFXANK_RFXAP:1.33034862454;TGIF1:1.32570674494;SPIB:1.30780362217;EN1,2:1.29857451045;HMX1:1.23000136013;FOXQ1:1.21136900652;ETS1,2:1.20832828161;TLX2:1.17376880174;ELK1,4_GABP{A,B1}:1.1212073221;NHLH1,2:1.05674178052;ATF4:1.04825428739;MYB:0.996268088753;AIRE:0.987668484787;FOX{F1,F2,J1}:0.958747553881;HIF1A:0.958462890387;BREu{core}:0.898852644092;MYOD1:0.868925250884;RORA:0.847216473155;PDX1:0.835584921581;CRX:0.826645070106;MYFfamily:0.773379288669;IRF1,2:0.68237321812;ZEB1:0.632495815521;FOXA2:0.629683803488;POU2F1..3:0.566172469098;BPTF:0.553741803833;TFAP4:0.516025158357;RXRA_VDR{dimer}:0.515533028735;SMAD1..7,9:0.512495556253;ALX1:0.509739620319;NR5A1,2:0.492358619109;FOX{D1,D2}:0.474530280154;SREBF1,2:0.464065146458;PAX3,7:0.455789306487;XBP1:0.439843520816;ESR1:0.436414478634;ESRRA:0.399455387541;EP300:0.378071075664;OCT4_SOX2{dimer}:0.352442235464;ATF6:0.338494593117;ZNF148:0.323225102364;TAL1_TCF{3,4,12}:0.320966316765;MEF2{A,B,C,D}:0.317441970159;PAX8:0.297580174103;FOXD3:0.294027647678;RBPJ:0.26767292937;IRF7:0.264043863668;GATA6:0.257112851364;PPARG:0.254111588869;FOX{I1,J2}:0.247404096628;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:0.241982906479;FOXO1,3,4:0.241266246074;NR6A1:0.218611414018;JUN:0.193088847805;ATF2:0.147485115797;LEF1_TCF7_TCF7L1,2:0.115944975175;MAFB:0.115193171475;SNAI1..3:0.113841119692;ZNF238:0.11186173267;CUX2:0.104791425782;HBP1_HMGB_SSRP1_UBTF:0.10198165223;BACH2:0.0973081545076;YY1:0.0954145198789;HMGA1,2:0.0952664817989;FOSL2:0.0639095619535;SOX2:0.0501435224496;POU5F1:0.0235507338428;HAND1,2:0.0189049558198;CDX1,2,4:0.00746169897165;FOS_FOS{B,L1}_JUN{B,D}:-0.018217850043;STAT1,3:-0.0307135586947;EGR1..3:-0.106261811653;AR:-0.108379213416;PRRX1,2:-0.110170586371;CEBPA,B_DDIT3:-0.116170131369;ZFP161:-0.125399107176;HNF4A_NR2F1,2:-0.147787003571;SOX{8,9,10}:-0.1501123314;NFE2:-0.15151924647;RXR{A,B,G}_{NR1H2,PPAR}dimers:-0.158963745692;HLF:-0.16010017759;CDC5L:-0.225144355278;NFATC1..3:-0.230265232724;NRF1:-0.231549254906;DBP:-0.233489682462;T:-0.233752943822;EVI1:-0.248085692704;NFY{A,B,C}:-0.256494430086;HOXA9_MEIS1:-0.266033310931;HNF1A:-0.287141151135;SOX5:-0.29029688353;HSF1,2:-0.308891925771;TFAP2{A,C}:-0.309798832;MED-1{core}:-0.316968763223;NFIX:-0.324949468307;E2F1..5:-0.334668048645;FOXP3:-0.339925678352;POU1F1:-0.351929364271;ALX4:-0.353661620351;SOX17:-0.379063925905;ZBTB6:-0.379886686347;PAX4:-0.390047205019;NKX2-2,8:-0.397625724955;bHLH_family:-0.411358121535;STAT5{A,B}:-0.414109550213;ZBTB16:-0.436179354001;NKX3-2:-0.439088964409;RFX1:-0.445556263445;NFE2L2:-0.466704333582;FOXP1:-0.474094396429;ZNF143:-0.478236960646;REST:-0.503072108745;STAT2,4,6:-0.515949621627;TFCP2:-0.51612692468;FOXL1:-0.516762854377;NKX2-3_NKX2-5:-0.553952163231;AHR_ARNT_ARNT2:-0.554214245046;PATZ1:-0.555705272393;MZF1:-0.581227095152;HES1:-0.600666911003;HOX{A4,D4}:-0.610720666718;GLI1..3:-0.628053549961;PRDM1:-0.633134102932;PAX5:-0.636321373486;GATA4:-0.638238275302;NR3C1:-0.647481934971;NKX3-1:-0.713400774831;GZF1:-0.714640283921;MTF1:-0.722280842845;PBX1:-0.732116420749;MAZ:-0.760171964046;SPZ1:-0.781276537055;HOX{A6,A7,B6,B7}:-0.786154674971;NKX2-1,4:-0.788135186749;ARID5B:-0.800987849333;HOX{A5,B5}:-0.803506868874;SP1:-0.810239477118;NR1H4:-0.811815744518;RREB1:-0.824269349493;RXR{A,B,G}:-0.827658020507;MTE{core}:-0.831153115363;TP53:-0.838794819237;TBP:-0.867218379889;SRF:-0.877325080015;GTF2A1,2:-0.889841184344;ZNF384:-0.910913527061;LHX3,4:-0.922350152463;HIC1:-0.932613297592;GCM1,2:-0.946801105353;IKZF2:-0.947412652906;TEF:-0.968065871032;MYBL2:-0.969079910674;TFAP2B:-0.977090382798;GFI1:-1.00181465941;POU3F1..4:-1.14773621119;VSX1,2:-1.19964361573;EBF1:-1.20147359058;NKX6-1,2:-1.20530876198;TBX4,5:-1.21809883655;ADNP_IRX_SIX_ZHX:-1.30418788038;NFE2L1:-1.34860658828;TFDP1:-1.36988778508;ONECUT1,2:-1.37420230539;GFI1B:-1.41517358813;TEAD1:-1.43267973393;GTF2I:-1.45859109241;POU6F1:-1.46739940265;UFEwm:-1.47718114504;TOPORS:-1.53113681252;KLF4:-1.55579258653;PITX1..3:-1.60810805939;XCPE1{core}:-1.61039480615;ZIC1..3:-1.63084051036;ZNF423:-1.6819076308;IKZF1:-1.69088130414;TLX1..3_NFIC{dimer}:-1.90133033868;PAX1,9:-2.02954694869;FOXM1:-2.37362433497 | ||
|xref= | |xref= | ||
|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_human;search_select_hide=table111:FF:11385-118B8;search_select_hide=table117:FF:11385-118B8 | |||
}} | }} |
Latest revision as of 17:56, 4 June 2020
Name: | Dendritic Cells - plasmacytoid, donor3 |
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Species: | Human (Homo sapiens) |
Library ID: | CNhs12200 |
Sample type: | primary cells |
Genomic View: | UCSC |
RefEX: | Specific genes |
FANTOM CAT: | 1, 2, 3, 4, 5, 6, 7, 8, 9, 10 |
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: CNhs12200
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: CNhs12200
Novel motif | Logo | P-value |
---|---|---|
1 | 1 | 0.759 |
10 | 10 | 0.0483 |
100 | 100 | 0.572 |
101 | 101 | 0.68 |
102 | 102 | 0.679 |
103 | 103 | 0.0697 |
104 | 104 | 0.459 |
105 | 105 | 0.501 |
106 | 106 | 0.062 |
107 | 107 | 0.4 |
108 | 108 | 0.116 |
109 | 109 | 0.141 |
11 | 11 | 0.369 |
110 | 110 | 0.907 |
111 | 111 | 0.55 |
112 | 112 | 0.881 |
113 | 113 | 0.596 |
114 | 114 | 0.384 |
115 | 115 | 0.494 |
116 | 116 | 0.308 |
117 | 117 | 0.0064 |
118 | 118 | 0.43 |
119 | 119 | 0.702 |
12 | 12 | 0.407 |
120 | 120 | 0.593 |
121 | 121 | 0.539 |
122 | 122 | 0.156 |
123 | 123 | 0.96 |
124 | 124 | 0.148 |
125 | 125 | 0.252 |
126 | 126 | 0.17 |
127 | 127 | 0.329 |
128 | 128 | 0.368 |
129 | 129 | 0.314 |
13 | 13 | 0.104 |
130 | 130 | 0.675 |
131 | 131 | 0.645 |
132 | 132 | 0.0322 |
133 | 133 | 0.238 |
134 | 134 | 0.573 |
135 | 135 | 0.689 |
136 | 136 | 0.771 |
137 | 137 | 0.00188 |
138 | 138 | 0.761 |
139 | 139 | 0.116 |
14 | 14 | 0.254 |
140 | 140 | 0.844 |
141 | 141 | 0.438 |
142 | 142 | 0.793 |
143 | 143 | 0.00939 |
144 | 144 | 0.5 |
145 | 145 | 0.539 |
146 | 146 | 0.478 |
147 | 147 | 0.134 |
148 | 148 | 0.121 |
149 | 149 | 0.357 |
15 | 15 | 0.1 |
150 | 150 | 0.532 |
151 | 151 | 0.446 |
152 | 152 | 0.787 |
153 | 153 | 0.435 |
154 | 154 | 0.955 |
155 | 155 | 0.0354 |
156 | 156 | 0.916 |
157 | 157 | 0.545 |
158 | 158 | 0.323 |
159 | 159 | 0.248 |
16 | 16 | 0.466 |
160 | 160 | 0.309 |
161 | 161 | 0.397 |
162 | 162 | 0.194 |
163 | 163 | 0.712 |
164 | 164 | 0.576 |
165 | 165 | 0.32 |
166 | 166 | 0.281 |
167 | 167 | 0.74 |
168 | 168 | 0.76 |
169 | 169 | 0.701 |
17 | 17 | 0.849 |
18 | 18 | 0.739 |
19 | 19 | 0.229 |
2 | 2 | 0.877 |
20 | 20 | 0.403 |
21 | 21 | 0.983 |
22 | 22 | 0.723 |
23 | 23 | 0.678 |
24 | 24 | 0.229 |
25 | 25 | 0.0907 |
26 | 26 | 0.989 |
27 | 27 | 0.0973 |
28 | 28 | 0.286 |
29 | 29 | 0.0275 |
3 | 3 | 0.323 |
30 | 30 | 0.448 |
31 | 31 | 0.786 |
32 | 32 | 0.0494 |
33 | 33 | 0.292 |
34 | 34 | 0.906 |
35 | 35 | 0.0977 |
36 | 36 | 0.187 |
37 | 37 | 0.131 |
38 | 38 | 0.436 |
39 | 39 | 0.414 |
4 | 4 | 0.109 |
40 | 40 | 0.975 |
41 | 41 | 0.0279 |
42 | 42 | 0.101 |
43 | 43 | 0.286 |
44 | 44 | 0.672 |
45 | 45 | 0.78 |
46 | 46 | 0.578 |
47 | 47 | 0.602 |
48 | 48 | 0.786 |
49 | 49 | 0.292 |
5 | 5 | 0.437 |
50 | 50 | 0.672 |
51 | 51 | 0.339 |
52 | 52 | 0.893 |
53 | 53 | 0.697 |
54 | 54 | 0.997 |
55 | 55 | 0.671 |
56 | 56 | 0.764 |
57 | 57 | 0.858 |
58 | 58 | 0.038 |
59 | 59 | 0.797 |
6 | 6 | 0.796 |
60 | 60 | 0.274 |
61 | 61 | 0.0772 |
62 | 62 | 0.0255 |
63 | 63 | 0.956 |
64 | 64 | 0.659 |
65 | 65 | 0.833 |
66 | 66 | 0.577 |
67 | 67 | 0.138 |
68 | 68 | 0.57 |
69 | 69 | 0.539 |
7 | 7 | 0.0859 |
70 | 70 | 0.0855 |
71 | 71 | 0.139 |
72 | 72 | 0.154 |
73 | 73 | 0.717 |
74 | 74 | 0.316 |
75 | 75 | 0.154 |
76 | 76 | 0.505 |
77 | 77 | 0.455 |
78 | 78 | 0.018 |
79 | 79 | 0.589 |
8 | 8 | 0.458 |
80 | 80 | 0.00836 |
81 | 81 | 0.534 |
82 | 82 | 0.277 |
83 | 83 | 0.218 |
84 | 84 | 0.367 |
85 | 85 | 0.543 |
86 | 86 | 0.0819 |
87 | 87 | 0.0622 |
88 | 88 | 0.313 |
89 | 89 | 0.63 |
9 | 9 | 0.375 |
90 | 90 | 0.086 |
91 | 91 | 0.982 |
92 | 92 | 0.734 |
93 | 93 | 0.598 |
94 | 94 | 0.255 |
95 | 95 | 0.0125 |
96 | 96 | 0.932 |
97 | 97 | 0.849 |
98 | 98 | 0.228 |
99 | 99 | 3.77779e-4 |
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: CNhs12200
FANTOM5 (FF) ontology
Direct parent terms
is_a relathionship
EFO:0002091 biological replicate
FF:0000045 human plasmacytoid dendritic cell 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)
0000988 (hematopoietic cell)
0000548 (animal cell)
0002371 (somatic cell)
0000219 (motile cell)
0000738 (leukocyte)
0000255 (eukaryotic cell)
0000451 (dendritic cell)
0000784 (plasmacytoid dendritic cell)
FF: FANTOM5
0000102 (sample by type)
0000210 (human sample)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000001 (sample)
0000045 (human plasmacytoid dendritic cell 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:0000134 (mesenchymal cell)