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{{f5samples
{{f5samples
|DRA_sample_Accession=CAGE@SAMD00005491
|DRA_sample_Accession_RNASeq=sRNA-Seq@SAMD00005491
|accession_numbers=CAGE;DRX008357;DRR009229;DRZ000654;DRZ002039;DRZ012004;DRZ013389
|accession_numbers_RNASeq=sRNA-Seq;DRX037060;DRR041426;DRZ007068
|ancestors_in_anatomy_facet=UBERON:0002331,UBERON:0002384,UBERON:0000479,UBERON:0004120,UBERON:0000061,UBERON:0000465,UBERON:0000481,UBERON:0001062,UBERON:0000478,UBERON:0003104,UBERON:0010317,UBERON:0003422,UBERON:0009142
|ancestors_in_anatomy_facet=UBERON:0002331,UBERON:0002384,UBERON:0000479,UBERON:0004120,UBERON:0000061,UBERON:0000465,UBERON:0000481,UBERON:0001062,UBERON:0000478,UBERON:0003104,UBERON:0010317,UBERON:0003422,UBERON:0009142
|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000723,CL:0000048,CL:0000548,CL:0002320,CL:0002371,CL:0000219,CL:0000134,CL:0000349,CL:0000255,CL:0000034,CL:0002569
|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000723,CL:0000048,CL:0000548,CL:0002320,CL:0002371,CL:0000219,CL:0000134,CL:0000349,CL:0000255,CL:0000034,CL:0002569
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|created_by=
|created_by=
|creation_date=
|creation_date=
|datafreeze_phase=1
|data_phase=2
|datafreeze_phase=2
|def=
|def=
|expression_enrichment_score=chr4:174451370..174451387,-!p1@HAND2!2.92!838.89!HAND2;;chr19:46801639..46801699,+!p1@HIF3A!2.38!237.13!HIF3A;;chr7:27224795..27224840,-!p2@HOXA11!2.14!136.74!HOXA11;;chr17:26697276..26697303,-!p2@SEBOX,p2@VTN!2.07!115.58!SEBOX;;chr7:27224842..27224872,-!p1@HOXA11!2.03!106.90!HOXA11;;chr11:46299199..46299233,+!p1@CREB3L1!2.00!487.82!CREB3L1;;chr12:54410664..54410684,+!p1@HOXC4,p1@HOXC5,p1@HOXC6!1.92!82.48!HOXC5;;chr4:111544219..111544240,-!p1@PITX2!1.91!80.85!PITX2;;chr4:174451350..174451363,-!p3@HAND2!1.86!72.17!HAND2;;chr7:19157248..19157268,-!p1@TWIST1!1.81!168.76!TWIST1;;chr4:174450089..174450153,-!p2@HAND2!1.77!57.52!HAND2;;chr5:92918919..92918942,+!p1@NR2F1!1.72!221.39!NR2F1;;chr11:46299539..46299620,+!p2@CREB3L1!1.71!82.48!CREB3L1;;chr11:61520075..61520136,+!p1@C11orf9!1.64!87.36!C11orf9;;chr12:54402745..54402788,+!p1@HOXC8!1.63!41.78!HOXC8;;chr5:134369905..134369972,-!p1@PITX1!1.59!57.52!PITX1;;chr6:134210243..134210257,+!p1@TCF21!1.58!36.90!TCF21;;chrX:106960285..106960299,-!p1@TSC22D3!1.56!904.55!TSC22D3;;chr9:77112244..77112262,+!p1@RORB!1.51!34.73!RORB;;chr18:19749541..19749557,+!p1@GATA6!1.50!93.87!GATA6;;chr17:46682321..46682362,-!p1@HOXB6!1.50!30.39!HOXB6;;chr11:113930425..113930471,+!p1@ZBTB16!1.49!42.87!ZBTB16;;chr4:111558135..111558198,-!p2@PITX2!1.49!29.84!PITX2;;chr12:54378923..54378966,+!p1@HOXC10!1.47!28.76!HOXC10;;chr2:176969228..176969260,+!p1@HOXD11!1.47!28.22!HOXD11;;chr17:26697304..26697335,-!p1@SEBOX,p1@VTN!1.41!24.96!SEBOX;;chr18:19749386..19749404,+!p2@GATA6!1.39!33.10!GATA6;;chr5:92919100..92919135,+!p3@NR2F1!1.38!27.67!NR2F1;;chr5:134369879..134369898,-!p2@PITX1!1.37!22.25!PITX1;;chr8:48650715..48650735,-!p1@CEBPD!1.36!2664.27!CEBPD;;chr7:27213893..27213954,-!p1@HOXA10!1.35!21.16!HOXA10;;chr6:144329384..144329405,-!p1@PLAGL1!1.32!224.65!PLAGL1;;chr8:49833948..49833973,-!p2@SNAI2!1.32!123.18!SNAI2;;chr11:47279248..47279264,+!p3@NR1H3!1.32!22.79!NR1H3;;chr7:35293685..35293718,-!p1@TBX20!1.32!20.08!TBX20;;chr16:49698228..49698243,-!p2@ZNF423!1.31!19.53!ZNF423;;chr7:27192185..27192209,-!p1@HOXA3!1.29!18.45!HOXA3;;chr5:92918956..92918969,+!p4@NR2F1!1.28!19.53!NR2F1;;chr2:19558373..19558392,-!p1@OSR1!1.27!47.75!OSR1;;chr5:92919375..92919438,+!p6@NR2F1!1.27!18.99!NR2F1;;chr17:59477233..59477263,+!p1@TBX2!1.25!51.55!TBX2;;chr3:126076242..126076257,-!p1@KLF15!1.25!20.62!KLF15;;chr7:27239703..27239715,-!p1@HOXA13!1.25!16.82!HOXA13;;chrX:107019163..107019179,-!p7@TSC22D3!1.24!18.99!TSC22D3;;chr12:115122318..115122331,-!p2@TBX3!1.24!16.28!TBX3;;chr5:92918860..92918871,+!p10@NR2F1!1.22!17.36!NR2F1;;chr5:92918768..92918783,+!p8@NR2F1!1.22!15.74!NR2F1;;chr11:46299443..46299459,+!p4@CREB3L1!1.22!15.74!CREB3L1;;chr16:86544113..86544145,+!p1@FOXF1!1.21!18.99!FOXF1;;chr5:92919068..92919082,+!p5@NR2F1!1.19!17.36!NR2F1;;chr11:63684602..63684664,-!p1@RCOR2!1.17!27.13!RCOR2;;chr5:92918894..92918912,+!p2@NR2F1!1.16!43.95!NR2F1;;chr12:54402790..54402805,+!p2@HOXC8!1.16!13.57!HOXC8;;chr7:101460882..101460923,+!p5@CUX1!1.15!13.02!CUX1;;chr3:126076264..126076305,-!p2@KLF15!1.13!17.36!KLF15;;chr11:45202580..45202606,+!p@chr11:45202580..45202606,+!1.13!15.74!PRDM11;;chr5:92918789..92918800,+!p12@NR2F1!1.13!12.48!NR2F1;;chr8:49833978..49833996,-!p1@SNAI2!1.12!251.78!SNAI2;;chr17:38498594..38498661,+!p2@RARA!1.12!41.24!RARA;;chr12:115121962..115121987,-!p1@TBX3!1.11!98.76!TBX3;;chr12:54384370..54384382,+!p5@HOXC6!1.11!11.94!HOXC6;;chr19:46800289..46800327,+!p2@HIF3A!1.11!11.94!HIF3A;;chr13:41240737..41240787,-!p1@FOXO1!1.10!137.28!FOXO1;;chr17:61919812..61919833,-!p6@SMARCD2!1.10!14.65!SMARCD2;;chr13:41240717..41240735,-!p2@FOXO1!1.09!77.59!FOXO1;;chr7:149470641..149470694,-!p1@ZNF467!1.09!51.01!ZNF467;;chr12:54393880..54393962,+!p1@HOXC9!1.09!11.40!HOXC9;;chr12:54410639..54410659,+!p2@HOXC4,p2@HOXC5,p2@HOXC6!1.09!11.40!HOXC5;;chrX:107018969..107019024,-!p6@TSC22D3!1.06!14.65!TSC22D3;;chr12:56414795..56414836,+!p4@IKZF4!1.05!10.31!IKZF4;;chr11:113930401..113930422,+!p3@ZBTB16!1.03!9.77!ZBTB16;;chr12:54402729..54402743,+!p3@HOXC8!1.03!9.77!HOXC8;;chr1:170632285..170632309,+!p1@PRRX1!1.02!10.85!PRRX1;;chr14:75894714..75894733,+!p1@JDP2!1.01!263.71!JDP2;;chr11:113930291..113930339,+!p2@ZBTB16!1.01!15.19!ZBTB16;;chr20:62680984..62680999,-!p1@SOX18!1.01!12.48!SOX18;;chr17:26697257..26697268,-!p3@SEBOX,p3@VTN!1.01!9.22!SEBOX;;chr12:54379029..54379057,+!p2@HOXC10!1.01!9.22!HOXC10;;chr2:66662281..66662308,+!p1@MEIS1!1.00!31.47!MEIS1;;chr7:19157043..19157088,-!p2@TWIST1!1.00!23.33!TWIST1;;chr5:153857778..153857794,-!p1@HAND1!0.99!8.68!HAND1;;chr12:115121770..115121781,-!p4@TBX3!0.99!8.68!TBX3;;chr2:176969179..176969226,+!p2@HOXD11!0.99!8.68!HOXD11;;chr20:2673383..2673441,+!p1@EBF4!0.96!13.02!EBF4;;chr1:54204818..54204870,-!p@chr1:54204818..54204870,-!0.96!8.68!GLIS1;;chr1:226411361..226411366,+!p1@MIXL1!0.96!8.14!MIXL1;;chrX:107018836..107018862,-!p8@TSC22D3!0.96!8.14!TSC22D3;;chr17:59477275..59477286,+!p3@TBX2!0.94!10.31!TBX2;;chr2:66662249..66662267,+!p2@MEIS1!0.93!29.84!MEIS1;;chr12:1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|expression_enrichment_score=chr4:174451370..174451387,-!p1@HAND2!2.92!838.89!HAND2;;chr19:46801639..46801699,+!p1@HIF3A!2.38!237.13!HIF3A;;chr7:27224795..27224840,-!p2@HOXA11!2.14!136.74!HOXA11;;chr17:26697276..26697303,-!p2@SEBOX,p2@VTN!2.07!115.58!SEBOX;;chr7:27224842..27224872,-!p1@HOXA11!2.03!106.90!HOXA11;;chr11:46299199..46299233,+!p1@CREB3L1!2.00!487.82!CREB3L1;;chr12:54410664..54410684,+!p1@HOXC4,p1@HOXC5,p1@HOXC6!1.92!82.48!HOXC5;;chr4:111544219..111544240,-!p1@PITX2!1.91!80.85!PITX2;;chr4:174451350..174451363,-!p3@HAND2!1.86!72.17!HAND2;;chr7:19157248..19157268,-!p1@TWIST1!1.81!168.76!TWIST1;;chr4:174450089..174450153,-!p2@HAND2!1.77!57.52!HAND2;;chr5:92918919..92918942,+!p1@NR2F1!1.72!221.39!NR2F1;;chr11:46299539..46299620,+!p2@CREB3L1!1.71!82.48!CREB3L1;;chr11:61520075..61520136,+!p1@C11orf9!1.64!87.36!C11orf9;;chr12:54402745..54402788,+!p1@HOXC8!1.63!41.78!HOXC8;;chr5:134369905..134369972,-!p1@PITX1!1.59!57.52!PITX1;;chr6:134210243..134210257,+!p1@TCF21!1.58!36.90!TCF21;;chrX:106960285..106960299,-!p1@TSC22D3!1.56!904.55!TSC22D3;;chr9:77112244..77112262,+!p1@RORB!1.51!34.73!RORB;;chr18:19749541..19749557,+!p1@GATA6!1.50!93.87!GATA6;;chr17:46682321..46682362,-!p1@HOXB6!1.50!30.39!HOXB6;;chr11:113930425..113930471,+!p1@ZBTB16!1.49!42.87!ZBTB16;;chr4:111558135..111558198,-!p2@PITX2!1.49!29.84!PITX2;;chr12:54378923..54378966,+!p1@HOXC10!1.47!28.76!HOXC10;;chr2:176969228..176969260,+!p1@HOXD11!1.47!28.22!HOXD11;;chr17:26697304..26697335,-!p1@SEBOX,p1@VTN!1.41!24.96!SEBOX;;chr18:19749386..19749404,+!p2@GATA6!1.39!33.10!GATA6;;chr5:92919100..92919135,+!p3@NR2F1!1.38!27.67!NR2F1;;chr5:134369879..134369898,-!p2@PITX1!1.37!22.25!PITX1;;chr8:48650715..48650735,-!p1@CEBPD!1.36!2664.27!CEBPD;;chr7:27213893..27213954,-!p1@HOXA10!1.35!21.16!HOXA10;;chr6:144329384..144329405,-!p1@PLAGL1!1.32!224.65!PLAGL1;;chr8:49833948..49833973,-!p2@SNAI2!1.32!123.18!SNAI2;;chr11:47279248..47279264,+!p3@NR1H3!1.32!22.79!NR1H3;;chr7:35293685..35293718,-!p1@TBX20!1.32!20.08!TBX20;;chr16:49698228..49698243,-!p2@ZNF423!1.31!19.53!ZNF423;;chr7:27192185..27192209,-!p1@HOXA3!1.29!18.45!HOXA3;;chr5:92918956..92918969,+!p4@NR2F1!1.28!19.53!NR2F1;;chr2:19558373..19558392,-!p1@OSR1!1.27!47.75!OSR1;;chr5:92919375..92919438,+!p6@NR2F1!1.27!18.99!NR2F1;;chr17:59477233..59477263,+!p1@TBX2!1.25!51.55!TBX2;;chr3:126076242..126076257,-!p1@KLF15!1.25!20.62!KLF15;;chr7:27239703..27239715,-!p1@HOXA13!1.25!16.82!HOXA13;;chrX:107019163..107019179,-!p7@TSC22D3!1.24!18.99!TSC22D3;;chr12:115122318..115122331,-!p2@TBX3!1.24!16.28!TBX3;;chr5:92918860..92918871,+!p10@NR2F1!1.22!17.36!NR2F1;;chr5:92918768..92918783,+!p8@NR2F1!1.22!15.74!NR2F1;;chr11:46299443..46299459,+!p4@CREB3L1!1.22!15.74!CREB3L1;;chr16:86544113..86544145,+!p1@FOXF1!1.21!18.99!FOXF1;;chr5:92919068..92919082,+!p5@NR2F1!1.19!17.36!NR2F1;;chr11:63684602..63684664,-!p1@RCOR2!1.17!27.13!RCOR2;;chr5:92918894..92918912,+!p2@NR2F1!1.16!43.95!NR2F1;;chr12:54402790..54402805,+!p2@HOXC8!1.16!13.57!HOXC8;;chr7:101460882..101460923,+!p5@CUX1!1.15!13.02!CUX1;;chr3:126076264..126076305,-!p2@KLF15!1.13!17.36!KLF15;;chr11:45202580..45202606,+!p@chr11:45202580..45202606,+!1.13!15.74!PRDM11;;chr5:92918789..92918800,+!p12@NR2F1!1.13!12.48!NR2F1;;chr8:49833978..49833996,-!p1@SNAI2!1.12!251.78!SNAI2;;chr17:38498594..38498661,+!p2@RARA!1.12!41.24!RARA;;chr12:115121962..115121987,-!p1@TBX3!1.11!98.76!TBX3;;chr12:54384370..54384382,+!p5@HOXC6!1.11!11.94!HOXC6;;chr19:46800289..46800327,+!p2@HIF3A!1.11!11.94!HIF3A;;chr13:41240737..41240787,-!p1@FOXO1!1.10!137.28!FOXO1;;chr17:61919812..61919833,-!p6@SMARCD2!1.10!14.65!SMARCD2;;chr13:41240717..41240735,-!p2@FOXO1!1.09!77.59!FOXO1;;chr7:149470641..149470694,-!p1@ZNF467!1.09!51.01!ZNF467;;chr12:54393880..54393962,+!p1@HOXC9!1.09!11.40!HOXC9;;chr12:54410639..54410659,+!p2@HOXC4,p2@HOXC5,p2@HOXC6!1.09!11.40!HOXC5;;chrX:107018969..107019024,-!p6@TSC22D3!1.06!14.65!TSC22D3;;chr12:56414795..56414836,+!p4@IKZF4!1.05!10.31!IKZF4;;chr11:113930401..113930422,+!p3@ZBTB16!1.03!9.77!ZBTB16;;chr12:54402729..54402743,+!p3@HOXC8!1.03!9.77!HOXC8;;chr1:170632285..170632309,+!p1@PRRX1!1.02!10.85!PRRX1;;chr14:75894714..75894733,+!p1@JDP2!1.01!263.71!JDP2;;chr11:113930291..113930339,+!p2@ZBTB16!1.01!15.19!ZBTB16;;chr20:62680984..62680999,-!p1@SOX18!1.01!12.48!SOX18;;chr17:26697257..26697268,-!p3@SEBOX,p3@VTN!1.01!9.22!SEBOX;;chr12:54379029..54379057,+!p2@HOXC10!1.01!9.22!HOXC10;;chr2:66662281..66662308,+!p1@MEIS1!1.00!31.47!MEIS1;;chr7:19157043..19157088,-!p2@TWIST1!1.00!23.33!TWIST1;;chr5:153857778..153857794,-!p1@HAND1!0.99!8.68!HAND1;;chr12:115121770..115121781,-!p4@TBX3!0.99!8.68!TBX3;;chr2:176969179..176969226,+!p2@HOXD11!0.99!8.68!HOXD11;;chr20:2673383..2673441,+!p1@EBF4!0.96!13.02!EBF4;;chr1:54204818..54204870,-!p@chr1:54204818..54204870,-!0.96!8.68!GLIS1;;chr1:226411361..226411366,+!p1@MIXL1!0.96!8.14!MIXL1;;chrX:107018836..107018862,-!p8@TSC22D3!0.96!8.14!TSC22D3;;chr17:59477275..59477286,+!p3@TBX2!0.94!10.31!TBX2;;chr2:66662249..66662267,+!p2@MEIS1!0.93!29.84!MEIS1;;chr12:1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|fantom_cat=http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000034;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000134;;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:0002569;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0002331
|ffid_belonging_in_development=CL:0000134
|ffid_belonging_in_development=CL:0000134
|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/Mesenchymal%2520Stem%2520Cells%2520-%2520umbilical%252c%2520donor1.CNhs11347.11539-120A9.hg19.nobarcode.bam
|hg19ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Mesenchymal%2520Stem%2520Cells%2520-%2520umbilical%252c%2520donor1.CNhs11347.11539-120A9.hg19.ctss.bed.gz
|hg19fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Mesenchymal%2520Stem%2520Cells%2520-%2520umbilical%252c%2520donor1.CNhs11347.11539-120A9.hg19.nobarcode.rdna.fa.gz
|hg38bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.hCAGE/Mesenchymal%2520Stem%2520Cells%2520-%2520umbilical%252c%2520donor1.CNhs11347.11539-120A9.hg38.nobarcode.bam
|hg38ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.hCAGE/Mesenchymal%2520Stem%2520Cells%2520-%2520umbilical%252c%2520donor1.CNhs11347.11539-120A9.hg38.nobarcode.ctss.bed.gz
|id=FF:11539-120A9
|id=FF:11539-120A9
|is_a=EFO:0002091;;FF:0000094
|is_a=EFO:0002091;;FF:0000094
|is_obsolete=
|is_obsolete=
|library_id=CNhs11347
|library_id_phase_based=2:CNhs11347
|microRNAs=
|microRNAs_nn=
|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/human#cage;sample;11539
|microRNAs_nonnovel_srna=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2016/vis_viewer/#/human#srna;sample;SRhi10005.CAGATC.11539
|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/human#cage;sample;11539
|microRNAs_novel_srna=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2016/vis_viewer_novel/#/human#srna;sample;SRhi10005.CAGATC.11539
|name=Mesenchymal Stem Cells - umbilical, donor1
|name=Mesenchymal Stem Cells - umbilical, donor1
|namespace=FANTOM5
|namespace=FANTOM5
Line 46: Line 65:
|profile_cagescan=,,,
|profile_cagescan=,,,
|profile_hcage=CNhs11347,LSID769,release014,COMPLETED
|profile_hcage=CNhs11347,LSID769,release014,COMPLETED
|profile_rnaseq=,,,
|profile_rnaseq=
|profile_srnaseq=SRhi10005,,,
|profile_srnaseq=SRhi10005,,,
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|rna_box=120
|rna_box=120
|rna_catalog_number=SC7535
|rna_catalog_number=SC7535
Line 60: Line 82:
|rna_tube_id=120A9
|rna_tube_id=120A9
|rna_weight_ug=10
|rna_weight_ug=10
|rnaseq_library_id=SRhi10005.CAGATC
|sample_age=
|sample_age=
|sample_category=primary cells
|sample_cell_catalog=N/A
|sample_cell_catalog=N/A
|sample_cell_line=
|sample_cell_line=
Line 82: Line 106:
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|top_motifs=GLI1..3:2.89618532352;ZNF423:2.71990157573;ESR1:2.49394330015;TAL1_TCF{3,4,12}:2.37947853626;RXR{A,B,G}:2.22287829799;ZNF238:2.21851936596;NR6A1:2.19618676487;RXRA_VDR{dimer}:2.05739259078;RORA:1.99202943619;TFAP4:1.94476718279;GTF2A1,2:1.75598825288;ATF6:1.7219677509;TFAP2{A,C}:1.55332982202;EBF1:1.44940778126;GZF1:1.36756365897;LHX3,4:1.35873516885;AR:1.33872599993;HOX{A5,B5}:1.26959460688;MAFB:1.20564400893;PAX5:1.16455642538;FOXM1:1.12960272486;ZNF148:1.11430239495;PATZ1:1.09565308974;NR3C1:1.04725877137;TFCP2:1.04707763884;SMAD1..7,9:1.01509558385;NR5A1,2:1.00649971545;NANOG{mouse}:0.956688491732;SPZ1:0.876540504464;SOX5:0.821481381778;TLX1..3_NFIC{dimer}:0.772484006468;RREB1:0.728803453103;GTF2I:0.724096736211;POU6F1:0.717255585604;IKZF1:0.706406472563;EN1,2:0.676093210371;TP53:0.671778552255;NKX3-1:0.668731263792;NR1H4:0.630118277531;bHLH_family:0.62270367048;ESRRA:0.550410737008;UFEwm:0.541119741313;PRRX1,2:0.521631545829;MAZ:0.509189864396;HAND1,2:0.46948624194;NANOG:0.467844627391;ZIC1..3:0.458408482302;KLF4:0.439187098309;CEBPA,B_DDIT3:0.436016710789;YY1:0.427945594021;TEAD1:0.378687503107;HLF:0.377148642917;NKX2-3_NKX2-5:0.366296494974;HNF1A:0.354722391678;ALX4:0.339649554045;SP1:0.334772482901;HIF1A:0.332825163762;MZF1:0.324845578751;RXR{A,B,G}_{NR1H2,PPAR}dimers:0.315146505818;GFI1B:0.311313157069;STAT2,4,6:0.294286045566;FOXL1:0.282101336925;HNF4A_NR2F1,2:0.279371065479;ZBTB6:0.24682300282;PAX1,9:0.233195968548;SOX17:0.162432604858;HIC1:0.156785794713;DBP:0.126757197239;TOPORS:0.107487159746;XBP1:0.0997759349185;REST:0.0973543221427;PBX1:0.0945007708644;AIRE:0.0929942256493;ZNF384:0.085475235276;TFAP2B:0.0783602161107;MED-1{core}:0.0569083432173;NHLH1,2:0.0434009525436;PPARG:0.0357694742638;TBP:0.0197402328123;XCPE1{core}:0.0103985174121;EP300:-8.74686040832e-05;EVI1:-0.00746315367557;GATA6:-0.0196312835087;RFX1:-0.0240425802106;NKX2-2,8:-0.032440787748;FOXD3:-0.0460516095849;TEF:-0.055961962999;MTF1:-0.0573018214607;NKX6-1,2:-0.0586563641681;GCM1,2:-0.069226145207;STAT1,3:-0.0826379045148;MYFfamily:-0.0828719796786;HOX{A4,D4}:-0.105984797643;RFX2..5_RFXANK_RFXAP:-0.120854563735;NFATC1..3:-0.152284496586;NFE2:-0.163093724549;GATA4:-0.168804426082;HMX1:-0.180793501508;JUN:-0.182766480466;SREBF1,2:-0.192048836474;MTE{core}:-0.192538901815;POU2F1..3:-0.203825107925;RUNX1..3:-0.210298757421;LEF1_TCF7_TCF7L1,2:-0.213846941445;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:-0.214189327878;HOXA9_MEIS1:-0.217237238352;SRF:-0.228928916364;HMGA1,2:-0.25421304991;BACH2:-0.255227557819;FOS_FOS{B,L1}_JUN{B,D}:-0.258827977293;NFKB1_REL_RELA:-0.265111158722;NFIL3:-0.266752783903;BPTF:-0.267469044706;ZNF143:-0.27307274606;PRDM1:-0.288830353982;MYBL2:-0.296732371482;NFE2L2:-0.303175683156;HES1:-0.307718722112;ONECUT1,2:-0.388392308163;TLX2:-0.401349649307;CDC5L:-0.457996426235;HOX{A6,A7,B6,B7}:-0.47928336432;PAX2:-0.490895687599;HSF1,2:-0.50188803373;LMO2:-0.503186677176;FOSL2:-0.513678872941;ATF2:-0.524657284275;ELK1,4_GABP{A,B1}:-0.532278688851;EGR1..3:-0.532800271554;ETS1,2:-0.559743122973;NFE2L1:-0.559971172571;DMAP1_NCOR{1,2}_SMARC:-0.569565958106;MEF2{A,B,C,D}:-0.582437264151;RBPJ:-0.586009778924;FOX{D1,D2}:-0.587439970457;SPIB:-0.588978938093;GFI1:-0.609971327114;CRX:-0.623115847396;FOXQ1:-0.628609927426;TBX4,5:-0.655861098747;IRF1,2:-0.680914765374;ELF1,2,4:-0.681305474535;T:-0.686996262068;NRF1:-0.707595804081;CUX2:-0.712079021257;SNAI1..3:-0.712652804472;STAT5{A,B}:-0.723061136573;ATF4:-0.725108470396;ZEB1:-0.738210479429;TGIF1:-0.742879162355;ARID5B:-0.744976850727;SPI1:-0.807309126355;FOXP3:-0.818885030841;SOX2:-0.838385524585;FOX{F1,F2,J1}:-0.839960780574;VSX1,2:-0.845073050048;ADNP_IRX_SIX_ZHX:-0.869450289992;ATF5_CREB3:-0.872766780124;IRF7:-0.881601642665;FOXA2:-0.899022371802;FOXN1:-0.93880111146;POU3F1..4:-0.950426298662;PAX4:-0.95641574408;AHR_ARNT_ARNT2:-0.973020971327;SOX{8,9,10}:-1.02123024194;NFIX:-1.02699012022;NKX3-2:-1.0312278082;POU5F1:-1.03564781203;NFY{A,B,C}:-1.0402599951;PAX6:-1.06241823464;E2F1..5:-1.11591302018;PAX3,7:-1.15696383193;CDX1,2,4:-1.17284441761;CREB1:-1.19354585873;BREu{core}:-1.22134030044;FOXO1,3,4:-1.26156864847;NKX2-1,4:-1.27415256485;OCT4_SOX2{dimer}:-1.38793806598;MYOD1:-1.3974574281;PDX1:-1.40559274957;MYB:-1.42666638106;FOXP1:-1.44304434209;ZFP161:-1.54847652197;PITX1..3:-1.62804624548;ZBTB16:-1.63909710535;POU1F1:-1.65052793743;TFDP1:-1.68519580826;PAX8:-1.70401260058;FOX{I1,J2}:-2.01974557949;ALX1:-2.0662018376;IKZF2:-2.16314562556;HBP1_HMGB_SSRP1_UBTF:-2.26428830599
|xref=
|xref=
|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_human;search_select_hide=table111:FF:11539-120A9;search_select_hide=table117:FF:11539-120A9
}}
}}

Latest revision as of 18:07, 4 June 2020

Name:Mesenchymal Stem Cells - umbilical, donor1
Species:Human (Homo sapiens)
Library ID:CNhs11347
Sample type:primary cells
Genomic View: UCSC
RefEX:Specific genes
FANTOM CAT:1, 2, 3, 4, 5
CAGEd-oPOSSUM:link
ZENBU report :link
Additional information
Sample information
strainNA
tissueumbilical cord
dev stageNA
sexNA
ageNA
cell typemesenchymal stem cell
cell lineNA
companySciencell/3H
collaborationFANTOM5 OSC CORE (contact: Al Forrest)
External link for information[{{{sample_info_link}}} {{{sample_info_link}}}]
RNA information
lot numberNA
catalog numberSC7535
sample typetotal RNA
extraction protocol (Details)OP-RNA-extraction-totalRNA-TRIzol-isopropanol-v1.0

CAGE Accession numbers
MethodSample accession id
CAGE  SAMD00005491
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs11347 CAGE DRX008357 DRR009229
Accession ID Hg19

Library idBAMCTSS
CNhs11347 DRZ000654 DRZ002039
Accession ID Hg38

Library idBAMCTSS
CNhs11347 DRZ012004 DRZ013389
Download raw sequence, BAM & CTSS
Hg19
FastaBAMCTSS
downloaddownloaddonwload
Hg38
BAMCTSS
downloaddonwload

RNA-Seq Accession numbers
MethodSample accession id
sRNA-Seq  SAMD00005491
Library accession numbers

Library idMethodExp. accession idRun accession id
SRhi10005.CAGATC sRNA-Seq DRX037060 DRR041426
Accession ID Hg19

Library idBAMCTSS
SRhi10005.CAGATC DRZ007068


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

Coexpression clusterscore
C0-CD14-Eosinophils-Neutrophils-Basophils-CD34-immature-Peripheral0
C1-testis-epididymis-embryonic-medulla-pituitary-trachea-caudate0
C10-occipital-temporal-parietal-brain-duodenum-Neurons-Neural0
C100-rhabdomyosarcoma-gastric-pineal-Wilms-cervical-mesodermal-endometrial0
C101-small-cerebellum-maxillary-colon-parietal-epididymis-merkel0
C102-neuroblastoma-testicular-pituitary-carcinosarcoma-rectum-acantholytic-iPS0
C103-CD4-CD8-Natural-Peripheral-Whole-Neutrophils-Basophils0
C104-Mast-Basophils-immature-CD14-CD34-eye-Natural0
C105-heart-skeletal-occipital-hippocampus-acute-Sebocyte-penis0.0108
C106-Hep2-epitheloid-placenta-cervical-rectal-anaplastic-glassy0
C107-Neutrophils-CD14-Eosinophils-Monocytederived-Whole-Peripheral-blood0
C108-breast-hepatoblastoma-MCF7-parotid-salivary-submaxillary-prostate0
C109-Reticulocytes-non-acute-Hodgkin-Burkitt-retinoblastoma-lymphoma-0.488
C11-cerebellum-medulla-pons-parietal-occipital-middle-medial0
C110-leukemia-chronic-Eosinophils-acute-Whole-CD34-Lymphatic0
C111-medulla-lung-trachea-testis-caudate-epididymis-throat0
C112-gastric-pancreas-temporal-duodenum-small-extraskeletal-adrenal0
C113-thyroid-throat-lung-lymph-small-colon-trachea0
C114-teratocarcinoma-medulloblastoma-carcinosarcoma-iPS-anaplastic-acute-neuroblastoma0
C115-pituitary-Neural-caudate-putamen-amygdala-medulla-hippocampus0
C116-myeloma-xeroderma-tonsil-CD19-spleen-lymph-trachea0
C117-serous-clear-kidney-neuroectodermal-mesothelioma-endometrial-Intestinal0
C118-cerebellum-parietal-occipital-medial-middle-frontal-insula0
C119-CD4-CD8-Natural-Neutrophils-CD14-Peripheral-CD190
C12-Mast-Basophils-immature-chorionic-mature-CD14-Eosinophils0
C120-immature-salivary-tongue-skin-cervical-CD14-CD340
C121-NK-Natural-CD8-CD4-anaplastic-chronic-B0
C122-chronic-Reticulocytes-skeletal-leukemia-acute-colon-Tracheal0
C123-CD19-Natural-CD8-CD4-CD14-Peripheral-Basophils0
C124-small-temporal-duodenum-colon-gall-signet-Hepatocyte0
C125-mucinous-alveolar-mesothelioma-Smooth-lung-CD14-Nucleus0
C126-gastrointestinal-argyrophil-smallcell-merkel-bile-insula-brain0
C127-maxillary-small-hepatoblastoma-hepatocellular-alveolar-colon-argyrophil0
C128-testicular-choriocarcinoma-H9-teratocarcinoma-pancreatic-iPS-HES3GFP0
C129-liver-Hepatocyte-colon-duodenum-temporal-testicular-small0
C13-Neutrophils-Eosinophils-CD14-Monocytederived-Whole-Peripheral-CD40
C130-iPS-HES3GFP-H9-teratocarcinoma-testicular-colon-Alveolar0
C131-lung-trachea-Alveolar-thyroid-umbilical-throat-skin0
C132-acute-small-Dendritic-Macrophage-CD14-Neutrophils-Monocytederived0
C133-signet-gall-small-kidney-colon-ductal-adenocarcinoma0
C134-skeletal-diaphragm-tongue-throat-Skeletal-skin-penis0
C135-neuroblastoma-retinoblastoma-carcinoid-choriocarcinoma-testicular-acute-rectum0
C136-Wilms-extraskeletal-anaplastic-rhabdomyosarcoma-cholangiocellular-nonsmall-neuroectodermal0
C137-large-ductal-melanoma-cervical-Endothelial-Smooth-chronic0
C138-diffuse-Burkitt-lymphangiectasia-lymphoma-acute-CD19-pineal0
C139-astrocytoma-skin-salivary-gall-serous-Mallassezderived-renal0
C14-Whole-blood-Reticulocytes-liver-Neutrophils-Eosinophils-spleen0
C140-Renal-Endothelial-Hepatic-Lymphatic-heart-lung-spleen0
C141-Hodgkin-acute-thymus-chronic-vein-CD4-B0
C142-Preadipocyte-Fibroblast-hepatic-Ewing-Adipocyte-Olfactory-Hair0
C143-Monocytederived-CD14-Macrophage-Dendritic-Basophils-CD14CD16-Osteoblast0
C144-CD4-tonsil-NK-appendix-CD8-splenic-mycosis0
C145-neuroblastoma-peripheral-neuroectodermal-neuroepithelioma-carcinoid-adult-extraskeletal0
C146-lymphangiectasia-lymphoma-gall-lymph-tonsil-gastric-transitionalcell0
C147-Neutrophils-Eosinophils-CD4-CD14-CD8-Natural-Peripheral0
C148-kidney-small-epididymis-pancreas-serous-duodenum-temporal0
C149-occipital-medial-brain-amygdala-parietal-cerebral-cerebellum0
C15-anaplastic-small-skeletal-neuroblastoma-parietal-temporal-tongue0
C150-merkel-carcinoid-nonsmall-gastrointestinal-argyrophil-pineal-small0
C151-CD14-Natural-Basophils-CD8-Eosinophils-CD4-Mast0
C152-peripheral-neuroectodermal-neuroepithelioma-neuroblastoma-testicular-carcinoid-lung0
C153-rhabdomyosarcoma-liposarcoma-pancreatic-somatostatinoma-Reticulocytes-lymphoma-testicular0
C154-adenocarcinoma-Mesenchymal-Cardiac-small-sacrococcigeal-Smooth-Prostate0
C155-pituitary-placenta-nonsmall-cervical-smallcell-choriocarcinoma-epitheloid0
C156-plasma-splenic-hereditary-B-large-xeroderma-b0
C157-testicular-H9-testis-iPS-teratocarcinoma-colon-trachea0
C158-adrenal-gastric-temporal-parietal-duodenum-caudate-putamen0
C159-choriocarcinoma-pancreatic-placenta-chorionic-testicular-bronchioalveolar-seminal0
C16-medial-amygdala-occipital-parietal-olfactory-putamen-brain0
C160-medulla-Hepatocyte-retina-corpus-liver-pineal-cerebral0
C161-mesothelioma-Mesothelial-acute-mesenchymal-extraskeletal-renal-placenta0
C162-spinal-locus-medulla-substantia-thalamus-globus-diencephalon0
C163-Skeletal-skeletal-Pericytes-Hepatic-rhabdomyosarcoma-throat-mesenchymal0
C164-signet-corpus-optic-mucinous-substantia-salivary-choriocarcinoma0
C165-epithelioid-Adipocyte-mesothelioma-myxofibrosarcoma-lung-gastric-Mesothelial0
C166-Macrophage-Monocytederived-Dendritic-adipose-lymph-CD14-lung0
C167-Basophils-Mast-Eosinophils-Neutrophils-Peripheral-Whole-CD40
C168-Mast-CD14-immature-Basophils-Eosinophils-CD34-Peripheral0
C169-hereditary-adult-gall-lymphangiectasia-chronic-b-choriocarcinoma0
C17-Mast-CD14-Monocytederived-Lymphatic-Smooth-mesenchymal-Macrophage0
C170-epitheloid-cervical-Hep2-keratoacanthoma-adult-neuroblastoma-signet0
C171-merkel-neuroblastoma-pineal-retinoblastoma-carcinoid-small-eye0
C172-chorionic-skeletal-tongue-amniotic-liver-gastrointestinal-Pericytes1.179
C173-Adipocyte-mature-skin-left-Hepatocyte-Osteoblast-adipose0
C174-CD14-Neutrophils-Smooth-mesothelioma-embryonic-Monocytederived-Eosinophils0
C175-Eosinophils-Neutrophils-CD4-Basophils-CD19-CD8-Natural-0.0208
C176-Eosinophils-Neutrophils-Mast-CD14-CD4-Basophils-CD19-0.314
C177-melanoma-Melanocyte-mesenchymal-retina-Mallassezderived-Gingival-squamous0
C178-spleen-liver-Hepatocyte-b-lymph-vein-thymus0
C179-CD19-Peripheral-lymphoma-blood-lymph-spleen-tonsil0
C18-CD4-CD8-thymus-Whole-Peripheral-Natural-blood0
C180-skeletal-heart-Hepatocyte-acute-occipital-hippocampus-middle0.266
C181-liposarcoma-somatostatinoma-neuroblastoma-mesothelioma-nonsmall-small-Alveolar0
C182-renal-mature-mesothelioma-lung-Mammary-Adipocyte-acute0
C183-acute-non-CD34-diffuse-CD133-myeloma-Burkitt0
C184-somatostatinoma-smallcell-nonsmall-small-gastrointestinal-pineal-thyroid0
C185-small-adrenal-gastric-Mesenchymal-acute-HES3GFP-testis0
C186-squamous-papillotubular-large-Tracheal-oral-Small-epidermoid0
C187-migratory-immature-Dendritic-CD19-CD14-Monocytederived-Macrophage0
C188-left-heart-tongue-skeletal-Skeletal-diaphragm-throat0
C189-b-splenic-tonsil-CD19-lymph-appendix-spleen0
C19-embryonic-testis-cord-chronic-CD14-NK-mesothelioma0
C190-colon-small-rectum-duodenum-appendix-temporal-oral0
C191-leiomyoblastoma-Mast-parietal-acute-bone-neuroepithelioma-embryonic0
C192-Neutrophils-CD14-Peripheral-Eosinophils-CD8-Natural-CD40
C193-Mesenchymal-Adipocyte-mature-Cardiac-heart-CD14CD16-CD140.319
C194-MCF7-breast-prostate-Intestinal-diffuse-Wilms-Alveolar0
C195-Small-Gingival-Bronchial-Smooth-mesenchymal-Urothelial-Tracheal0
C196-testicular-iPS-H9-teratocarcinoma-HES3GFP-choriocarcinoma-endometrial0
C197-tongue-esophagus-tonsil-salivary-cervix-nasal-Gingival0
C198-Mesenchymal-Hair-Hepatic-Fibroblast-Smooth-tenocyte-Pericytes0.681
C199-glioblastoma-B-osteosarcoma-Fibroblast-heart-rhabdomyosarcoma-myxofibrosarcoma0
C2-Eosinophils-Neutrophils-CD14-Whole-Basophils-Peripheral-Mast0
C20-heart-left-skeletal-diaphragm-tongue-umbilical-throat0
C200-seminal-Cardiac-Smooth-Hair-submaxillary-Neutrophils-mixed0.284
C201-colon-small-adenocarcinoma-duodenum-temporal-signet-gall0
C202-salivary-skin-penis-tongue-uterus-cervical-immature0
C203-acute-NK-chronic-CD133-lymphoma-immature-Dendritic0
C204-Smooth-nasal-CD4-CD19-CD8-CD14-CD340
C205-mycosis-cord-hairy-xeroderma-CD4-B-b0
C206-melanoma-somatostatinoma-nonsmall-small-neuroblastoma-smallcell-pituitary0
C207-Corneal-Keratinocyte-Esophageal-Mammary-Bronchial-Urothelial-Sebocyte0
C208-skin-amniotic-papillotubular-salivary-umbilical-Alveolar-serous0
C209-acute-myelodysplastic-CD34-granulocyte-CD133-liver-spleen0
C21-cord-mycosis-hairy-xeroderma-adult-CD4-anaplastic0
C210-Burkitt-lymphoma-appendix-acute-diffuse-CD19-tonsil0
C211-small-Hepatocyte-liver-colon-temporal-duodenum-kidney0
C212-chronic-acute-Whole-Reticulocytes-leukemia-blood-CD340
C213-CD14-Natural-CD8-CD4-Basophils-Eosinophils-Peripheral0
C214-Neurons-Neural-duodenum-temporal-occipital-parietal-brain0
C215-chronic-acute-peripheral-Hepatocyte-osteosarcoma-NK-immature0
C216-osteosarcoma-Smooth-Mesenchymal-large-neuroectodermal-acute-CD340
C217-carcinoid-neuroectodermal-mature-mesodermal-colon-acute-occipital0
C218-tonsil-lymph-CD19-spleen-colon-appendix-salivary0
C219-nasal-Basophils-amniotic-Melanocyte-CD14-Osteoblast-duodenum0
C22-CD4-CD8-Natural-Basophils-CD14-Peripheral-CD190
C220-Adipocyte-mature-left-breast-skin-liver-adipose0
C221-alveolar-Osteoblast-Myoblast-mesenchymal-liposarcoma-Smooth-hepatocellular0
C222-Melanocyte-Tracheal-Neutrophils-seminal-Smooth-Hair-Chondrocyte0.312
C223-Chondrocyte-basal-renal-Fibroblast-Smooth-spindle-Synoviocyte0
C224-clear-serous-pleomorphic-choriocarcinoma-mesothelioma-amniotic-renal0
C225-ductal-alveolar-giant-prostate-salivary-squamous-Tracheal0
C226-Corneal-Keratinocyte-Esophageal-Urothelial-Mammary-Bronchial-Tracheal0
C227-chorionic-amniotic-Mesenchymal-Placental-gastric-diaphragm-tongue1.466
C228-colon-Intestinal-Prostate-hepatoblastoma-hepatocellular-testis-adult0
C229-Mesenchymal-CD4-Melanocyte-acute-skeletal-left-heart0
C23-CD4-CD8-Natural-Peripheral-Basophils-CD19-CD140
C230-aorta-normal-heart-penis-osteosarcoma-basal-lung0
C231-Mesothelial-mesenchymal-mesothelioma-Fibroblast-Preadipocyte-leiomyoma-mycosis0
C232-teratocarcinoma-HES3GFP-H9-iPS-testicular-neuroblastoma-cerebellum0
C233-uterus-cervix-ovary-epididymis-colon-rectum-MCF70
C234-oral-epidermoid-malignant-cervical-ductal-lung-keratoacanthoma0
C235-Intestinal-Prostate-liver-colon-small-kidney-pancreas0
C236-CD14-Neutrophils-Monocytederived-renal-Eosinophils-testis-mesothelioma0
C237-acute-breast-testicular-hepatoblastoma-chronic-argyrophil-Bronchial0
C238-stomach-gall-breast-duodenum-temporal-MCF7-smallcell0
C239-CD4-lymphangiectasia-CD8-NK-mycosis-Renal-hairy0
C24-pineal-eye-retina-retinoblastoma-medulloblastoma-small-cerebral0
C240-Adipocyte-Preadipocyte-Osteoblast-Chondrocyte-tenocyte-Synoviocyte-mesenchymal0
C241-Reticulocytes-chronic-Tracheal-Hodgkin-Endothelial-Hair-thymus-0.27
C242-acute-Chondrocyte-myelodysplastic-granulocyte-biphenotypic-Fibroblast-stomach0
C243-Chondrocyte-trachea-Synoviocyte-mesodermal-renal-Fibroblast-Ewing0
C244-CD14-Monocytederived-Hepatocyte-heart-Neutrophils-acute-Macrophage0
C245-prostate-penis-salivary-esophagus-kidney-Neutrophils-Pancreatic0
C246-Neutrophils-Eosinophils-Whole-CD14-CD14CD16-Basophils-migratory0
C247-pons-locus-medulla-spinal-paracentral-medial-occipital0
C248-iPS-Aortic-Hep2-amygdala-acute-medial-Myoblast0
C249-nonsmall-small-smallcell-occipital-somatostatinoma-maxillary-medial0
C25-small-colon-temporal-duodenum-liver-Hepatocyte-gall0
C250-Mast-Neutrophils-CD14-Eosinophils-CD8-Peripheral-CD40
C251-gall-tonsil-trachea-CD14-salivary-throat-tongue0
C252-hepatic-Olfactory-sacrococcigeal-leiomyoma-normal-Synoviocyte-glioblastoma0.188
C253-spleen-rhabdomyosarcoma-Hepatocyte-small-uterus-liver-rectum0
C254-prostate-rhabdomyosarcoma-seminal-Fibroblast-transitionalcell-Smooth-Iris0
C255-Wilms-leiomyoblastoma-kidney-adrenal-MCF7-epithelioid-Mast0
C256-occipital-caudate-amygdala-medial-thalamus-hippocampus-medulla0
C257-pineal-insula-frontal-occipital-temporal-medial-paracentral0
C258-hepatoblastoma-hepatocellular-signet-colon-Intestinal-Prostate-gastric0
C259-Preadipocyte-Adipocyte-Fibroblast-Chondrocyte-tenocyte-normal-Ewing0
C26-Eosinophils-Neutrophils-CD14-CD14CD16-Basophils-Monocytederived-Whole0
C260-acute-chronic-Natural-NK-Basophils-biphenotypic-blood0
C261-locus-medial-parietal-pons-diencephalon-olfactory-spinal0
C262-breast-MCF7-skeletal-Reticulocytes-mucinous-hepatoblastoma-Wilms0
C263-cervical-keratoacanthoma-tongue-skin-esophagus-throat-tonsil0
C264-giant-keratoacanthoma-colon-fibrosarcoma-HES3GFP-Hep2-acute0
C265-CD4-Eosinophils-CD14-Natural-CD19-Basophils-CD80
C266-acute-chronic-leukemia-small-choriocarcinoma-hepatoma-Mast0
C267-pancreatic-placenta-choriocarcinoma-testicular-teratocarcinoma-chorionic-clear0
C268-Mallassezderived-Urothelial-Gingival-Small-Bronchial-Tracheal-Prostate0
C269-Basophils-Mast-Eosinophils-mature-CD14-chorionic-CD40
C27-pancreas-temporal-duodenum-salivary-ductus-umbilical-lung0
C270-CD4-Fibroblast-acute-iPS-Aortic-CD34-Smooth0
C271-pineal-spinal-locus-globus-medulla-thalamus-cerebellum0
C272-CD19-CD4-CD8-Whole-Peripheral-lymph-tonsil0
C273-Neutrophils-CD14-Eosinophils-Monocytederived-CD4-Natural-Mast0
C274-CD14-Mast-immature-Basophils-mature-vagina-Hepatocyte0
C275-pons-medulla-cerebellum-locus-thalamus-diencephalon-spinal0
C276-mesothelioma-kidney-renal-small-clear-cerebellum-Renal0
C277-mesothelioma-epithelioid-thyroid-extraskeletal-alveolar-glioblastoma-adenocarcinoma0
C278-amygdala-hippocampus-insula-medial-putamen-temporal-olfactory0
C279-parietal-cerebellum-occipital-temporal-middle-duodenum-medial0
C28-thymus-acute-vein-Hodgkin-chronic-throat-Dendritic0
C280-Mast-Natural-CD19-CD8-Eosinophils-CD34-CD40
C281-Hodgkin-Reticulocytes-chronic-NK-acute-retinoblastoma-small-0.535
C282-acute-B-tonsil-CD19-submaxillary-lymph-throat0
C283-tenocyte-Chondrocyte-mesenchymal-Macrophage-pleomorphic-Synoviocyte-cholangiocellular0
C284-parietal-occipital-medial-temporal-olfactory-locus-hippocampus0.0332
C285-cervical-Hep2-small-colon-temporal-duodenum-bronchogenic0
C286-cerebellum-occipital-optic-parietal-globus-caudate-medial0
C287-Hepatocyte-Chondrocyte-Adipocyte-Synoviocyte-liver-tenocyte-mesenchymal0
C288-Chondrocyte-Renal-Pericytes-Fibroblast-aorta-Smooth-Meningeal0.319
C289-chorionic-skeletal-heart-Mast-amniotic-granulosa-left0
C29-mature-adipose-Adipocyte-breast-Lymphatic-vein-heart0
C290-Eosinophils-CD14-Basophils-Mast-CD4-CD8-immature0
C291-spinal-substantia-retina-medulla-tongue-skeletal-trachea0
C292-Mesenchymal-skin-umbilical-Adipocyte-mesenchymal-Chondrocyte-skeletal1.147
C293-CD14-CD14CD16-Basophils-Peripheral-immature-Eosinophils-CD340
C294-CD14-Macrophage-Monocytederived-CD14CD16-Neutrophils-Basophils-Peripheral0
C295-Fibroblast-Smooth-Myoblast-Chondrocyte-hepatic-Synoviocyte-Preadipocyte0.728
C296-gall-small-mesothelioma-acute-bronchioalveolar-epidermoid-mixed0
C297-Eosinophils-CD4-Basophils-Natural-Neutrophils-CD8-Peripheral0
C298-small-optic-substantia-thalamus-diencephalon-globus-occipital0
C299-CD14CD16-Eosinophils-Neutrophils-CD14-Whole-Basophils-blood0
C3-occipital-temporal-insula-medial-postcentral-frontal-amygdala0
C30-thyroid-throat-mesothelioma-mucinous-trachea-chorionic-mesenchymal0
C300-CD4-CD8-NK-Natural-blood-mycosis-Basophils0
C301-Smooth-mesenchymal-Endothelial-Hepatic-basal-hepatic-chorionic0.42
C302-acute-peripheral-Neutrophils-NK-myelodysplastic-CD34-carcinoid0
C303-CD14-Basophils-Peripheral-Eosinophils-CD14CD16-Neutrophils-Whole0
C305-heart-skeletal-smooth-left-bladder-penis-esophagus0
C31-skeletal-tongue-diaphragm-throat-penis-skin-trachea0
C32-middle-occipital-parietal-hippocampus-amygdala-medial-olfactory0
C33-Reticulocytes-liver-Whole-blood-chronic-acute-spleen0
C34-placenta-chorionic-choriocarcinoma-mesothelioma-Wilms-Smooth-bile0
C35-caudate-putamen-diencephalon-nucleus-globus-thalamus-insula0
C36-B-b-splenic-plasma-xeroderma-adrenal-Burkitt0
C37-salivary-submaxillary-parotid-seminal-tongue-ductus-trachea0
C38-extraskeletal-rhabdomyosarcoma-adrenal-rectal-mesothelioma-lung-Wilms0
C39-epididymis-ductus-seminal-testis-acute-thyroid-CD1330
C4-optic-corpus-substantia-medulla-spinal-thalamus-globus0
C40-eye-retina-Lens-pineal-tongue-retinoblastoma-small0
C41-retina-eye-medulla-Retinal-medulloblastoma-kidney-pineal0
C42-small-lung-maxillary-pharyngeal-Mesenchymal-Wilms-colon0
C43-ductus-seminal-duodenum-temporal-gall-prostate-bladder0
C44-Dendritic-CD19-CD133-granulocyte-acute-thymus-immature0
C45-testicular-choriocarcinoma-H9-teratocarcinoma-Wilms-pancreatic-iPS0
C46-acute-Hodgkin-thymus-CD8-chronic-CD4-merkel0
C47-CD19-Burkitt-acute-xeroderma-tonsil-lymphoma-appendix0
C48-smooth-bladder-esophagus-colon-penis-aorta-uterus0
C49-H9-iPS-testicular-HES3GFP-teratocarcinoma-hepatoblastoma-choriocarcinoma0
C5-Hepatocyte-liver-hepatocellular-Intestinal-kidney-small-pancreas0
C50-chorionic-placenta-amniotic-migratory-smallcell-chronic-choriocarcinoma0
C51-kidney-mesothelioma-renal-signet-gall-lung-pancreas0
C52-adult-NK-chronic-cord-testis-embryonic-myeloma0
C53-medulloblastoma-pineal-retinoblastoma-small-retina-eye-pituitary0
C54-Dendritic-Macrophage-Monocytederived-CD14-leiomyoma-adipose-immature0
C55-hepatocellular-Intestinal-liver-Prostate-fibrosarcoma-Hepatocyte-hepatoblastoma0
C56-heart-left-umbilical-skeletal-penis-diaphragm-tongue0
C57-Neutrophils-Eosinophils-Whole-CD4-CD8-CD19-Natural0
C58-Melanocyte-melanoma-retina-Retinal-eye-migratory-H90
C59-Smooth-Fibroblast-Mesenchymal-tenocyte-Ewing-skin-hepatic1.032
C6-CD14-Eosinophils-Basophils-Peripheral-CD34-Natural-immature0
C60-esophagus-tonsil-throat-tongue-uterus-cervix-cervical0
C61-migratory-Dendritic-immature-Macrophage-xeroderma-cord-b0
C62-Burkitt-tonsil-CD19-submaxillary-spleen-salivary-lymph0
C63-neuroectodermal-neuroblastoma-carcinoid-peripheral-chronic-neuroepithelioma-acute0
C64-Mast-chronic-acute-immature-chorionic-Basophils-Dendritic0
C65-CD14-Eosinophils-Monocytederived-Basophils-immature-Macrophage-Neutrophils0
C66-cerebellum-middle-occipital-parietal-medial-amygdala-hippocampus0
C67-CD14-Monocytederived-Macrophage-dura-Dendritic-spleen-lung0
C68-amniotic-chorionic-Placental-salivary-placenta-tongue-mesothelioma0
C69-anaplastic-CD14-cord-hairy-mycosis-adult-NK0
C7-CD14-Eosinophils-Neutrophils-Smooth-Basophils-Macrophage-Mast0
C70-parotid-submaxillary-salivary-throat-trachea-aorta-tongue0
C71-Monocytederived-Macrophage-CD14-Dendritic-Osteoblast-leiomyoma-Prostate0
C72-skeletal-tongue-throat-heart-diaphragm-penis-left0
C73-pineal-eye-retina-caudate-cerebellum-left-parietal0
C74-splenic-B-b-plasma-xeroderma-lymphoma-hairy0
C75-Eosinophils-Natural-CD8-Basophils-CD14-CD4-Peripheral0
C76-argyrophil-gastrointestinal-temporal-duodenum-neuroblastoma-merkel-smallcell0
C77-Saos2-osteosarcoma-Neutrophils-Natural-Chondrocyte-Basophils-CD80
C78-lymphoma-plasma-tonsil-appendix-lymph-seminal-trachea0
C79-chorionic-Chondrocyte-Cardiac-Smooth-Fibroblast-Preadipocyte-Mesenchymal0.501
C8-Natural-CD8-Basophils-CD4-CD14-Peripheral-CD340
C80-immature-migratory-CD14-Dendritic-splenic-cord-Mast0
C81-trachea-salivary-throat-aorta-eye-submaxillary-parotid0
C82-Basophils-CD14-Eosinophils-Natural-Peripheral-immature-CD340
C83-choriocarcinoma-pancreatic-placenta-chorionic-HES3GFP-testicular-amniotic0
C84-choriocarcinoma-pancreatic-Wilms-Mallassezderived-thymus-salivary-colon0
C85-neuroblastoma-carcinoid-retinoblastoma-small-pineal-rhabdomyosarcoma-medulloblastoma0
C86-colon-carcinoid-small-neuroectodermal-giant-large-neuroepithelioma0
C87-retinoblastoma-left-nonsmall-heart-small-diaphragm-bronchogenic0
C88-Melanocyte-melanoma-Macrophage-Mesenchymal-migratory-Dendritic-Monocytederived0
C89-small-retinoblastoma-medulloblastoma-iPS-acantholytic-eye-bronchogenic0
C9-skeletal-diaphragm-tongue-throat-penis-heart-left0
C90-neuroectodermal-peripheral-neuroepithelioma-neuroblastoma-carcinoid-parietal-putamen0
C91-Fibroblast-Smooth-mesenchymal-Mesothelial-Small-Preadipocyte-Hair0
C92-CD14CD16-CD14-Eosinophils-Basophils-Neutrophils-Macrophage-Whole0
C93-chronic-acute-leukemia-acantholytic-medulloblastoma-testis-papillotubular0
C94-smallcell-adrenal-lung-nonsmall-small-somatostatinoma-teratocarcinoma0
C95-lung-aorta-trachea-penis-Alveolar-throat-endometrioid0
C96-non-acute-tonsil-spleen-Burkitt-lymphoma-appendix0
C97-small-smallcell-gastrointestinal-argyrophil-putamen-duodenum-brain0
C98-CD8-Natural-Basophils-blood-CD4-Peripheral-Whole0
C99-hairy-mycosis-submaxillary-salivary-cord-kidney-parotid0



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: CNhs11347

Jaspar motifP-value
MA0002.20.779
MA0003.10.148
MA0004.10.986
MA0006.10.222
MA0007.10.0191
MA0009.10.357
MA0014.10.763
MA0017.10.0974
MA0018.20.0234
MA0019.10.287
MA0024.12.86915e-5
MA0025.10.0504
MA0027.10.341
MA0028.10.363
MA0029.10.308
MA0030.10.329
MA0031.10.105
MA0035.20.382
MA0038.10.799
MA0039.20.733
MA0040.10.49
MA0041.10.335
MA0042.10.683
MA0043.10.0287
MA0046.10.122
MA0047.20.485
MA0048.10.666
MA0050.10.00213
MA0051.11.6027e-4
MA0052.10.024
MA0055.10.416
MA0057.10.422
MA0058.10.957
MA0059.10.771
MA0060.10.00101
MA0061.10.81
MA0062.20.00553
MA0065.20.0219
MA0066.10.192
MA0067.10.0712
MA0068.10.556
MA0069.10.0828
MA0070.10.168
MA0071.10.00525
MA0072.10.0824
MA0073.10.57
MA0074.10.0473
MA0076.10.135
MA0077.10.683
MA0078.10.708
MA0079.20.736
MA0080.28.48607e-7
MA0081.10.0198
MA0083.10.805
MA0084.10.111
MA0087.10.344
MA0088.10.627
MA0090.10.377
MA0091.10.00236
MA0092.10.218
MA0093.10.982
MA0099.20.0596
MA0100.10.0887
MA0101.10.17
MA0102.20.544
MA0103.10.409
MA0104.20.453
MA0105.10.296
MA0106.10.58
MA0107.10.2
MA0108.20.18
MA0111.10.901
MA0112.29.07734e-4
MA0113.11.74365e-4
MA0114.10.0709
MA0115.10.984
MA0116.10.0679
MA0117.10.502
MA0119.10.165
MA0122.10.697
MA0124.10.71
MA0125.10.226
MA0131.10.353
MA0135.10.639
MA0136.11.43014e-6
MA0137.20.722
MA0138.20.272
MA0139.10.709
MA0140.10.48
MA0141.10.112
MA0142.10.349
MA0143.10.623
MA0144.10.45
MA0145.10.139
MA0146.10.00524
MA0147.10.483
MA0148.10.95
MA0149.10.411
MA0150.10.318
MA0152.10.505
MA0153.10.157
MA0154.10.0691
MA0155.10.0966
MA0156.11.27507e-6
MA0157.10.245
MA0159.10.0728
MA0160.10.349
MA0162.10.139
MA0163.10.00203
MA0164.10.727
MA0258.10.0158
MA0259.10.44



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: CNhs11347

Novel motifP-value
10.622
100.979
1000.837
1010.977
1020.72
1030.232
1040.781
1050.414
1060.0678
1070.0528
1080.272
1090.218
110.131
1100.244
1110.616
1120.932
1130.0972
1140.6
1150.329
1160.0908
1170.402
1180.324
1190.865
120.798
1200.111
1210.921
1220.407
1230.00248
1240.483
1250.111
1260.412
1270.502
1280.202
1290.51
130.621
1300.47
1310.37
1320.183
1330.573
1340.643
1350.582
1360.531
1370.0734
1380.35
1390.00492
140.78
1400.168
1410.52
1420.488
1430.153
1440.117
1450.512
1460.352
1470.29
1480.831
1490.00108
150.882
1500.459
1510.401
1520.0682
1530.387
1540.429
1550.468
1560.689
1570.0887
1580.974
1590.968
160.0283
1600.0575
1610.348
1620.294
1630.955
1640.537
1650.555
1660.397
1670.341
1680.427
1690.0371
170.234
180.0759
190.0297
20.263
200.902
210.123
220.0423
230.157
240.403
250.587
260.219
270.487
280.287
290.591
30.278
300.224
310.237
321.26866e-15
330.894
340.151
350.875
360.563
370.0997
380.639
390.264
40.945
400.221
410.143
420.95
430.124
440.374
450.308
460.148
470.533
480.222
490.159
50.778
500.334
510.186
520.614
530.633
540.361
550.632
560.309
570.884
580.856
590.0418
60.401
600.43
610.539
620.422
630.302
640.295
650.0687
660.567
670.865
680.0325
690.189
70.865
700.0453
710.128
720.883
730.0524
740.839
750.271
760.796
770.0267
780.66
790.00453
80.186
800.69
810.847
820.131
830.948
840.199
850.0772
860.845
870.584
880.247
890.0323
90.12
900.422
910.802
920.142
930.613
940.306
950.345
960.68
970.649
980.411
990.109



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: CNhs11347


FANTOM5 (FF) ontology

Direct parent terms


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)
0000723 (somatic stem cell)
0000048 (multi fate stem cell)
0000548 (animal cell)
0002320 (connective tissue cell)
0002371 (somatic cell)
0000219 (motile cell)
0000134 (mesenchymal cell)
0000349 (extraembryonic cell)
0000255 (eukaryotic cell)
0000034 (stem cell)
0002569 (mesenchymal stem cell of umbilical cord)

UBERON: Anatomy
0002331 (umbilical cord)
0002384 (connective tissue)
0000479 (tissue)
0004120 (mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000481 (multi-tissue structure)
0001062 (anatomical entity)
0000478 (extraembryonic structure)
0003104 (mesenchyme)
0010317 (germ layer / neural crest derived structure)
0003422 (mesenchyme of umbilical cord)
0009142 (entire embryonic mesenchyme)

FF: FANTOM5
0000102 (sample by type)
0000210 (human sample)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000094 (human mesenchymal stem cell of umbilical cord-Sciencell sample)
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
CL:0000134 (mesenchymal cell)

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