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{{f5samples
{{f5samples
|DRA_sample_Accession=CAGE@DRS007711
|DRA_sample_Accession=CAGE@SAMD00004814
|accession_numbers=CAGE;DRX007816;DRR008688;DRZ000113;DRZ001498
|accession_numbers=CAGE;DRX007816;DRR008688;DRZ000113;DRZ001498;DRZ011463;DRZ012848
|ancestors_in_anatomy_facet=
|ancestors_in_anatomy_facet=
|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000988,CL:0000548,CL:0000763,CL:0002371,CL:0000255
|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000988,CL:0000548,CL:0000763,CL:0002371,CL:0000255
Line 9: Line 9:
|created_by=
|created_by=
|creation_date=
|creation_date=
|data_phase=1
|data_phase=2
|datafreeze_phase=1
|datafreeze_phase=2
|def=
|def=
|expression_enrichment_score=chr2:68592406..68592424,+!p1@PLEK!2.35!220.79!PLEK;;chr11:47400078..47400106,-!p1@SPI1!2.16!145.17!SPI1;;chr1:92949331..92949377,-!p2@GFI1!2.01!100.23!GFI1;;chr7:50344289..50344323,+!p1@IKZF1!1.98!93.59!IKZF1;;chr6:135502408..135502459,+!p2@MYB!1.93!95.94!MYB;;chr6:135502501..135502546,+!p1@MYB!1.84!80.89!MYB;;chr19:33793430..33793447,-!p1@CEBPA!1.76!228.80!CEBPA;;chr7:137620650..137620677,-!p3@CREB3L2!1.74!53.54!CREB3L2;;chr7:115670804..115670825,-!p1@TFEC!1.72!51.58!TFEC;;chr12:54694758..54694805,-!p1@NFE2!1.71!60.77!NFE2;;chr21:34442439..34442455,+!p1@OLIG1!1.70!49.24!OLIG1;;chr19:13213662..13213686,-!p1@LYL1!1.69!69.56!LYL1;;chr14:75988771..75988826,+!p1@BATF!1.67!59.98!BATF;;chr16:85932760..85932775,+!p1@IRF8!1.61!39.66!IRF8;;chr1:92951607..92951661,-!p1@GFI1!1.58!37.12!GFI1;;chr7:27224842..27224872,-!p1@HOXA11!1.57!35.95!HOXA11;;chr12:54778471..54778528,-!p1@ZNF385A!1.56!35.37!ZNF385A;;chr12:54694807..54694832,-!p3@NFE2!1.53!33.22!NFE2;;chr7:137620684..137620711,-!p4@CREB3L2!1.44!26.57!CREB3L2;;chr7:27205136..27205164,-!p1@HOXA9!1.44!26.38!HOXA9;;chr7:27224795..27224840,-!p2@HOXA11!1.38!23.06!HOXA11;;chr21:34442540..34442560,+!p2@OLIG1!1.32!19.73!OLIG1;;chr10:31288398..31288455,-!p2@ZNF438!1.29!21.49!ZNF438;;chr2:68592394..68592405,+!p2@PLEK!1.29!18.56!PLEK;;chr7:27213893..27213954,-!p1@HOXA10!1.25!16.80!HOXA10;;chr11:47400062..47400077,-!p2@SPI1!1.22!15.63!SPI1;;chr2:60780607..60780624,-!p2@BCL11A!1.20!45.13!BCL11A;;chr2:239148671..239148686,-!p1@HES6!1.18!51.97!HES6;;chr2:172949484..172949522,+!p1@DLX1!1.18!14.26!DLX1;;chr19:13213954..13214021,-!p4@LYL1!1.17!13.68!LYL1;;chr12:54694653..54694672,-!p2@NFE2!1.17!13.68!NFE2;;chr13:72441315..72441454,-!p1@DACH1!1.14!25.60!DACH1;;chr2:100759037..100759058,-!p2@AFF3!1.14!12.90!AFF3;;chr7:27192185..27192209,-!p1@HOXA3!1.14!12.70!HOXA3;;chr7:128577972..128578047,+!p1@IRF5!1.13!19.93!IRF5;;chr2:200322654..200322707,-!p2@SATB2!1.13!18.17!SATB2;;chr6:135502472..135502489,+!p3@MYB!1.12!12.11!MYB;;chr2:145277882..145277967,-!p3@ZEB2!1.10!20.32!ZEB2;;chr12:54410664..54410684,+!p1@HOXC4,p1@HOXC5,p1@HOXC6!1.10!11.53!HOXC5;;chr2:145277640..145277771,-!p1@ZEB2!1.08!147.52!ZEB2;;chr10:31288370..31288393,-!p3@ZNF438!1.08!11.14!ZNF438;;chr11:19262461..19262476,-!p5@E2F8!1.08!11.14!E2F8;;chr1:92952473..92952489,-!p3@GFI1!1.08!11.14!GFI1;;chr7:27205106..27205134,-!p2@HOXA9!1.08!10.94!HOXA9;;chr7:50344251..50344288,+!p3@IKZF1!1.06!10.55!IKZF1;;chr2:200320768..200320800,-!p4@SATB2!1.06!10.36!SATB2;;chr3:18486354..18486377,-!p2@SATB1!1.05!12.90!SATB1;;chr2:60778035..60778060,-!p4@BCL11A!1.05!12.31!BCL11A;;chr11:47399996..47400014,-!p4@SPI1!1.02!9.57!SPI1;;chr6:135516877..135516900,+!p5@MYB!1.01!9.18!MYB;;chr11:128563948..128564003,+!p1@FLI1!1.00!111.76!FLI1;;chr7:50343634..50343717,+!p2@IKZF1!1.00!8.99!IKZF1;;chr1:92949505..92949543,-!p5@GFI1!1.00!8.99!GFI1;;chr20:42295745..42295765,+!p1@MYBL2!0.98!142.44!MYBL2;;chr19:13213704..13213726,-!p3@LYL1!0.98!11.33!LYL1;;chr11:19263160..19263176,-!p1@E2F8!0.95!9.38!E2F8;;chr11:47400045..47400060,-!p6@SPI1!0.95!7.82!SPI1;;chr2:100759010..100759035,-!p1@AFF3!0.95!7.82!AFF3;;chr20:42295713..42295738,+!p2@MYBL2!0.94!47.09!MYBL2;;chr2:60780753..60780800,-!p1@BCL11A!0.94!38.88!BCL11A;;chr7:27239703..27239715,-!p1@HOXA13!0.94!7.62!HOXA13;;chr14:75988831..75988847,+!p2@BATF!0.90!7.03!BATF;;chr13:79177703..79177729,-!p2@POU4F1!0.90!7.03!POU4F1;;chr13:41593425..41593480,-!p1@ELF1!0.88!44.55!ELF1;;chr21:36421535..36421610,-!p2@RUNX1!0.88!24.81!RUNX1;;chr1:23857698..23857733,-!p1@E2F2!0.88!12.50!E2F2;;chr2:102091566..102091581,-!p1@RFX8!0.87!6.45!RFX8;;chr11:47399947..47399961,-!p3@SPI1!0.87!6.45!SPI1;;chr9:77112244..77112262,+!p1@RORB!0.86!7.03!RORB;;chr11:19263192..19263222,-!p2@E2F8!0.85!7.62!E2F8;;chr12:48298785..48298828,-!p1@VDR!0.82!32.04!VDR;;chr17:41277372..41277418,-!p1@BRCA1!0.82!21.69!BRCA1;;chr8:145669791..145669834,-!p1@TONSL!0.82!17.19!TONSL;;chr2:200322711..200322722,-!p10@SATB2!0.82!5.67!SATB2;;chr16:54320675..54320715,-!p1@IRX3!0.79!11.92!IRX3;;chr16:88752889..88752921,-!p1@SNAI3!0.79!6.06!SNAI3;;chr6:144385698..144385742,-!p2@PLAGL1!0.78!6.25!PLAGL1;;chr6:135513595..135513617,+!p4@MYB!0.78!5.08!MYB;;chr11:19262421..19262455,-!p3@E2F8!0.78!5.08!E2F8;;chr13:79177674..79177701,-!p1@POU4F1!0.77!4.88!POU4F1;;chr6:135516909..135516925,+!p6@MYB!0.77!4.88!MYB;;chr1:25256756..25256774,-!p1@RUNX3!0.76!9.38!RUNX3;;chr6:20402102..20402152,+!p1@E2F3!0.74!20.32!E2F3;;chr11:47400032..47400043,-!p5@SPI1!0.74!4.49!SPI1;;chr12:54410639..54410659,+!p2@HOXC4,p2@HOXC5,p2@HOXC6!0.74!4.49!HOXC5;;chr2:113977697..113977733,-!p6@PAX8!0.74!4.49!PAX8;;chr17:41623692..41623715,-!p1@ETV4!0.73!20.52!ETV4;;chr2:66662281..66662308,+!p1@MEIS1!0.72!16.22!MEIS1;;chr19:47538560..47538591,+!p2@NPAS1!0.72!4.30!NPAS1;;chr20:50159198..50159299,-!p1@NFATC2!0.71!6.25!NFATC2;;chr10:31146746..31146755,-!p14@ZNF438!0.71!4.10!ZNF438;;chr12:54380404..54380433,+!p3@HOXC10!0.71!4.10!HOXC10;;chr12:54694738..54694749,-!p5@NFE2!0.71!4.10!NFE2;;chr5:1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|expression_enrichment_score=chr2:68592406..68592424,+!p1@PLEK!2.35!220.79!PLEK;;chr11:47400078..47400106,-!p1@SPI1!2.16!145.17!SPI1;;chr1:92949331..92949377,-!p2@GFI1!2.01!100.23!GFI1;;chr7:50344289..50344323,+!p1@IKZF1!1.98!93.59!IKZF1;;chr6:135502408..135502459,+!p2@MYB!1.93!95.94!MYB;;chr6:135502501..135502546,+!p1@MYB!1.84!80.89!MYB;;chr19:33793430..33793447,-!p1@CEBPA!1.76!228.80!CEBPA;;chr7:137620650..137620677,-!p3@CREB3L2!1.74!53.54!CREB3L2;;chr7:115670804..115670825,-!p1@TFEC!1.72!51.58!TFEC;;chr12:54694758..54694805,-!p1@NFE2!1.71!60.77!NFE2;;chr21:34442439..34442455,+!p1@OLIG1!1.70!49.24!OLIG1;;chr19:13213662..13213686,-!p1@LYL1!1.69!69.56!LYL1;;chr14:75988771..75988826,+!p1@BATF!1.67!59.98!BATF;;chr16:85932760..85932775,+!p1@IRF8!1.61!39.66!IRF8;;chr1:92951607..92951661,-!p1@GFI1!1.58!37.12!GFI1;;chr7:27224842..27224872,-!p1@HOXA11!1.57!35.95!HOXA11;;chr12:54778471..54778528,-!p1@ZNF385A!1.56!35.37!ZNF385A;;chr12:54694807..54694832,-!p3@NFE2!1.53!33.22!NFE2;;chr7:137620684..137620711,-!p4@CREB3L2!1.44!26.57!CREB3L2;;chr7:27205136..27205164,-!p1@HOXA9!1.44!26.38!HOXA9;;chr7:27224795..27224840,-!p2@HOXA11!1.38!23.06!HOXA11;;chr21:34442540..34442560,+!p2@OLIG1!1.32!19.73!OLIG1;;chr10:31288398..31288455,-!p2@ZNF438!1.29!21.49!ZNF438;;chr2:68592394..68592405,+!p2@PLEK!1.29!18.56!PLEK;;chr7:27213893..27213954,-!p1@HOXA10!1.25!16.80!HOXA10;;chr11:47400062..47400077,-!p2@SPI1!1.22!15.63!SPI1;;chr2:60780607..60780624,-!p2@BCL11A!1.20!45.13!BCL11A;;chr2:239148671..239148686,-!p1@HES6!1.18!51.97!HES6;;chr2:172949484..172949522,+!p1@DLX1!1.18!14.26!DLX1;;chr19:13213954..13214021,-!p4@LYL1!1.17!13.68!LYL1;;chr12:54694653..54694672,-!p2@NFE2!1.17!13.68!NFE2;;chr13:72441315..72441454,-!p1@DACH1!1.14!25.60!DACH1;;chr2:100759037..100759058,-!p2@AFF3!1.14!12.90!AFF3;;chr7:27192185..27192209,-!p1@HOXA3!1.14!12.70!HOXA3;;chr7:128577972..128578047,+!p1@IRF5!1.13!19.93!IRF5;;chr2:200322654..200322707,-!p2@SATB2!1.13!18.17!SATB2;;chr6:135502472..135502489,+!p3@MYB!1.12!12.11!MYB;;chr2:145277882..145277967,-!p3@ZEB2!1.10!20.32!ZEB2;;chr12:54410664..54410684,+!p1@HOXC4,p1@HOXC5,p1@HOXC6!1.10!11.53!HOXC5;;chr2:145277640..145277771,-!p1@ZEB2!1.08!147.52!ZEB2;;chr10:31288370..31288393,-!p3@ZNF438!1.08!11.14!ZNF438;;chr11:19262461..19262476,-!p5@E2F8!1.08!11.14!E2F8;;chr1:92952473..92952489,-!p3@GFI1!1.08!11.14!GFI1;;chr7:27205106..27205134,-!p2@HOXA9!1.08!10.94!HOXA9;;chr7:50344251..50344288,+!p3@IKZF1!1.06!10.55!IKZF1;;chr2:200320768..200320800,-!p4@SATB2!1.06!10.36!SATB2;;chr3:18486354..18486377,-!p2@SATB1!1.05!12.90!SATB1;;chr2:60778035..60778060,-!p4@BCL11A!1.05!12.31!BCL11A;;chr11:47399996..47400014,-!p4@SPI1!1.02!9.57!SPI1;;chr6:135516877..135516900,+!p5@MYB!1.01!9.18!MYB;;chr11:128563948..128564003,+!p1@FLI1!1.00!111.76!FLI1;;chr7:50343634..50343717,+!p2@IKZF1!1.00!8.99!IKZF1;;chr1:92949505..92949543,-!p5@GFI1!1.00!8.99!GFI1;;chr20:42295745..42295765,+!p1@MYBL2!0.98!142.44!MYBL2;;chr19:13213704..13213726,-!p3@LYL1!0.98!11.33!LYL1;;chr11:19263160..19263176,-!p1@E2F8!0.95!9.38!E2F8;;chr11:47400045..47400060,-!p6@SPI1!0.95!7.82!SPI1;;chr2:100759010..100759035,-!p1@AFF3!0.95!7.82!AFF3;;chr20:42295713..42295738,+!p2@MYBL2!0.94!47.09!MYBL2;;chr2:60780753..60780800,-!p1@BCL11A!0.94!38.88!BCL11A;;chr7:27239703..27239715,-!p1@HOXA13!0.94!7.62!HOXA13;;chr14:75988831..75988847,+!p2@BATF!0.90!7.03!BATF;;chr13:79177703..79177729,-!p2@POU4F1!0.90!7.03!POU4F1;;chr13:41593425..41593480,-!p1@ELF1!0.88!44.55!ELF1;;chr21:36421535..36421610,-!p2@RUNX1!0.88!24.81!RUNX1;;chr1:23857698..23857733,-!p1@E2F2!0.88!12.50!E2F2;;chr2:102091566..102091581,-!p1@RFX8!0.87!6.45!RFX8;;chr11:47399947..47399961,-!p3@SPI1!0.87!6.45!SPI1;;chr9:77112244..77112262,+!p1@RORB!0.86!7.03!RORB;;chr11:19263192..19263222,-!p2@E2F8!0.85!7.62!E2F8;;chr12:48298785..48298828,-!p1@VDR!0.82!32.04!VDR;;chr17:41277372..41277418,-!p1@BRCA1!0.82!21.69!BRCA1;;chr8:145669791..145669834,-!p1@TONSL!0.82!17.19!TONSL;;chr2:200322711..200322722,-!p10@SATB2!0.82!5.67!SATB2;;chr16:54320675..54320715,-!p1@IRX3!0.79!11.92!IRX3;;chr16:88752889..88752921,-!p1@SNAI3!0.79!6.06!SNAI3;;chr6:144385698..144385742,-!p2@PLAGL1!0.78!6.25!PLAGL1;;chr6:135513595..135513617,+!p4@MYB!0.78!5.08!MYB;;chr11:19262421..19262455,-!p3@E2F8!0.78!5.08!E2F8;;chr13:79177674..79177701,-!p1@POU4F1!0.77!4.88!POU4F1;;chr6:135516909..135516925,+!p6@MYB!0.77!4.88!MYB;;chr1:25256756..25256774,-!p1@RUNX3!0.76!9.38!RUNX3;;chr6:20402102..20402152,+!p1@E2F3!0.74!20.32!E2F3;;chr11:47400032..47400043,-!p5@SPI1!0.74!4.49!SPI1;;chr12:54410639..54410659,+!p2@HOXC4,p2@HOXC5,p2@HOXC6!0.74!4.49!HOXC5;;chr2:113977697..113977733,-!p6@PAX8!0.74!4.49!PAX8;;chr17:41623692..41623715,-!p1@ETV4!0.73!20.52!ETV4;;chr2:66662281..66662308,+!p1@MEIS1!0.72!16.22!MEIS1;;chr19:47538560..47538591,+!p2@NPAS1!0.72!4.30!NPAS1;;chr20:50159198..50159299,-!p1@NFATC2!0.71!6.25!NFATC2;;chr10:31146746..31146755,-!p14@ZNF438!0.71!4.10!ZNF438;;chr12:54380404..54380433,+!p3@HOXC10!0.71!4.10!HOXC10;;chr12:54694738..54694749,-!p5@NFE2!0.71!4.10!NFE2;;chr5:1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Line 41: Line 41:
|fonse_treatment_closure=
|fonse_treatment_closure=
|has_quality=
|has_quality=
|hg19bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.cell_line.hCAGE/acute%2520myeloid%2520leukemia%2520%2528FAB%2520M5%2529%2520cell%2520line%253aU-937%2520DE-4.CNhs13058.10834-111D6.hg19.nobarcode.bam
|hg19ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.cell_line.hCAGE/acute%2520myeloid%2520leukemia%2520%2528FAB%2520M5%2529%2520cell%2520line%253aU-937%2520DE-4.CNhs13058.10834-111D6.hg19.ctss.bed.gz
|hg19fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.cell_line.hCAGE/acute%2520myeloid%2520leukemia%2520%2528FAB%2520M5%2529%2520cell%2520line%253aU-937%2520DE-4.CNhs13058.10834-111D6.hg19.nobarcode.rdna.fa.gz
|hg38bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.cell_line.hCAGE/acute%2520myeloid%2520leukemia%2520%2528FAB%2520M5%2529%2520cell%2520line%253aU-937%2520DE-4.CNhs13058.10834-111D6.hg38.nobarcode.bam
|hg38ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.cell_line.hCAGE/acute%2520myeloid%2520leukemia%2520%2528FAB%2520M5%2529%2520cell%2520line%253aU-937%2520DE-4.CNhs13058.10834-111D6.hg38.nobarcode.ctss.bed.gz
|id=FF:10834-111D6
|id=FF:10834-111D6
|is_a=EFO:0002091;;FF:0000210;;FF:0101883
|is_a=EFO:0002091;;FF:0000210;;FF:0101883
|is_obsolete=
|is_obsolete=
|library_id=CNhs13058
|library_id=CNhs13058
|library_id_phase_based=1:CNhs13058
|library_id_phase_based=2:CNhs13058
|microRNAs=
|microRNAs_nn=
|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/human#cage;sample;10834
|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/human#cage;sample;10834
|name=acute myeloid leukemia (FAB M5) cell line:U-937 DE-4
|name=acute myeloid leukemia (FAB M5) cell line:U-937 DE-4
|namespace=FANTOM5
|namespace=FANTOM5
Line 51: Line 60:
|profile_cagescan=,,,
|profile_cagescan=,,,
|profile_hcage=CNhs13058,LSID1000,release012,COMPLETED
|profile_hcage=CNhs13058,LSID1000,release012,COMPLETED
|profile_rnaseq=,,,
|profile_rnaseq=
|profile_srnaseq=,,,
|profile_srnaseq=,,,
|refex=http://refex.dbcls.jp/genelist.php?lang
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Line 90: Line 100:
|top_motifs=MYB:2.12193472649;E2F1..5:1.96508115438;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:1.72351301129;NKX2-2,8:1.58475360192;RXR{A,B,G}_{NR1H2,PPAR}dimers:1.54325434651;SPIB:1.15692297003;ELK1,4_GABP{A,B1}:1.06325320151;YY1:1.04702702955;ELF1,2,4:1.03623542647;SPI1:0.93329196574;FOXA2:0.837737617839;NRF1:0.813004664377;NR5A1,2:0.733981495862;ETS1,2:0.728710933839;DMAP1_NCOR{1,2}_SMARC:0.727920221489;NR6A1:0.712671274516;GATA4:0.625674746471;NANOG{mouse}:0.62479530329;ZNF143:0.617941184437;PAX3,7:0.612197130094;RUNX1..3:0.60936935402;POU5F1:0.575670559776;IKZF2:0.569033722877;NFY{A,B,C}:0.56271226132;FOXP3:0.534010135185;TEF:0.519347723217;ESRRA:0.518625458309;TFDP1:0.508292351407;NKX3-2:0.493892744442;CEBPA,B_DDIT3:0.493386552529;CRX:0.482933439031;KLF4:0.470256954899;BREu{core}:0.456126067261;AIRE:0.4297550484;bHLH_family:0.427028350364;GATA6:0.407542898388;CUX2:0.39490117495;HOX{A5,B5}:0.37877684418;FOXD3:0.363824389373;FOXQ1:0.348293601132;HAND1,2:0.340246803081;GCM1,2:0.332570823988;ARID5B:0.309089207413;RXRA_VDR{dimer}:0.292122258625;PITX1..3:0.235727867039;POU2F1..3:0.226123155581;ZNF238:0.225878919531;NKX3-1:0.199323335452;HNF4A_NR2F1,2:0.190733854185;ZBTB16:0.177871439317;OCT4_SOX2{dimer}:0.173597767616;PAX8:0.162380885586;NANOG:0.155568428843;NFIL3:0.141228006825;EN1,2:0.129165832893;GFI1:0.110863384943;HOX{A6,A7,B6,B7}:0.10177459471;SREBF1,2:0.0695103995582;PRRX1,2:0.0665019800482;NKX6-1,2:0.062889124139;HLF:0.0439098281534;HBP1_HMGB_SSRP1_UBTF:0.0233124144459;VSX1,2:0.0152408850658;PAX5:-0.00560079314208;HOX{A4,D4}:-0.0649046641502;NKX2-3_NKX2-5:-0.0658031341271;REST:-0.0937088341895;HES1:-0.107447886291;IKZF1:-0.137701452483;ALX1:-0.140283592704;PAX2:-0.141082773441;POU1F1:-0.151639532662;MYOD1:-0.166112606825;AR:-0.172422511288;RFX2..5_RFXANK_RFXAP:-0.185973451892;AHR_ARNT_ARNT2:-0.18599235354;SOX{8,9,10}:-0.206319434778;PRDM1:-0.21519425957;FOX{I1,J2}:-0.219777192888;NFKB1_REL_RELA:-0.226156470494;UFEwm:-0.2274076757;CDX1,2,4:-0.227857826464;ATF5_CREB3:-0.229038112231;T:-0.236856573381;PBX1:-0.237139221072;EP300:-0.246725632103;FOXM1:-0.24785020697;POU6F1:-0.258128263212;PPARG:-0.270000760338;MYBL2:-0.273620206826;MTF1:-0.273871244055;IRF7:-0.2738971037;FOXP1:-0.290248694147;IRF1,2:-0.291791455389;TOPORS:-0.30613402942;HSF1,2:-0.309272757614;ONECUT1,2:-0.311625337211;HNF1A:-0.31294941085;GZF1:-0.335948620778;NFE2:-0.339703138322;MYFfamily:-0.348009806627;NR1H4:-0.353625366743;FOSL2:-0.359338978966;DBP:-0.369651065885;ZEB1:-0.371952889492;SOX17:-0.372555195831;TLX2:-0.375595332898;RORA:-0.377860339666;HMX1:-0.379298473878;SNAI1..3:-0.400385567058;NKX2-1,4:-0.410648012572;ZNF384:-0.428132757626;STAT5{A,B}:-0.433690632679;RBPJ:-0.456850954879;HIF1A:-0.476545455475;TGIF1:-0.481838979176;POU3F1..4:-0.500358648944;NFE2L2:-0.504260979012;XBP1:-0.511713378386;NFE2L1:-0.513280959065;SPZ1:-0.515223893538;MEF2{A,B,C,D}:-0.518675197964;FOX{F1,F2,J1}:-0.521678396194;CREB1:-0.525257864839;FOS_FOS{B,L1}_JUN{B,D}:-0.526701235654;RREB1:-0.584297523375;BACH2:-0.587435300386;PAX6:-0.59493288064;HOXA9_MEIS1:-0.60432328866;LEF1_TCF7_TCF7L1,2:-0.625948231049;ZNF423:-0.628800738992;PDX1:-0.656576792822;RXR{A,B,G}:-0.657559294394;MZF1:-0.663133488701;ESR1:-0.672811342439;ATF4:-0.702169926226;FOXN1:-0.704863255701;EVI1:-0.72432837947;PAX4:-0.736491033641;ALX4:-0.75851729288;NHLH1,2:-0.801412434895;SRF:-0.843251926784;GTF2A1,2:-0.850169114423;ZBTB6:-0.857485639481;LMO2:-0.860197365272;LHX3,4:-0.899137257785;MAFB:-0.904887603027;TAL1_TCF{3,4,12}:-0.916468916977;ZNF148:-0.919787712752;EBF1:-0.922680173021;FOXO1,3,4:-0.93337063271;BPTF:-0.93382649665;TP53:-0.970104945236;HMGA1,2:-0.976410971308;RFX1:-0.98020700609;TFAP2{A,C}:-0.982824664272;ZFP161:-0.984051931461;ADNP_IRX_SIX_ZHX:-0.994064543733;FOXL1:-1.0304703059;CDC5L:-1.05128700985;SOX5:-1.0532960674;GTF2I:-1.05818570199;ZIC1..3:-1.05999748215;MTE{core}:-1.09854689755;NFIX:-1.1244486796;NR3C1:-1.14988747854;TLX1..3_NFIC{dimer}:-1.18101083228;TFCP2:-1.19971643003;PAX1,9:-1.21520081612;SMAD1..7,9:-1.22841482146;STAT2,4,6:-1.23581093606;TFAP4:-1.2425827708;MED-1{core}:-1.30604743678;TEAD1:-1.31063590068;SP1:-1.32439622133;TBX4,5:-1.34141495552;NFATC1..3:-1.35167589785;ATF2:-1.35795676084;GLI1..3:-1.36161695242;HIC1:-1.39024483808;TBP:-1.41001430299;SOX2:-1.45514277181;STAT1,3:-1.48589770496;ATF6:-1.51752521759;GFI1B:-1.52741655813;PATZ1:-1.57552798655;TFAP2B:-1.58496211421;FOX{D1,D2}:-1.62694136197;JUN:-1.72460706571;XCPE1{core}:-1.76266522846;EGR1..3:-1.83691570777;MAZ:-1.89078906967
|top_motifs=MYB:2.12193472649;E2F1..5:1.96508115438;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:1.72351301129;NKX2-2,8:1.58475360192;RXR{A,B,G}_{NR1H2,PPAR}dimers:1.54325434651;SPIB:1.15692297003;ELK1,4_GABP{A,B1}:1.06325320151;YY1:1.04702702955;ELF1,2,4:1.03623542647;SPI1:0.93329196574;FOXA2:0.837737617839;NRF1:0.813004664377;NR5A1,2:0.733981495862;ETS1,2:0.728710933839;DMAP1_NCOR{1,2}_SMARC:0.727920221489;NR6A1:0.712671274516;GATA4:0.625674746471;NANOG{mouse}:0.62479530329;ZNF143:0.617941184437;PAX3,7:0.612197130094;RUNX1..3:0.60936935402;POU5F1:0.575670559776;IKZF2:0.569033722877;NFY{A,B,C}:0.56271226132;FOXP3:0.534010135185;TEF:0.519347723217;ESRRA:0.518625458309;TFDP1:0.508292351407;NKX3-2:0.493892744442;CEBPA,B_DDIT3:0.493386552529;CRX:0.482933439031;KLF4:0.470256954899;BREu{core}:0.456126067261;AIRE:0.4297550484;bHLH_family:0.427028350364;GATA6:0.407542898388;CUX2:0.39490117495;HOX{A5,B5}:0.37877684418;FOXD3:0.363824389373;FOXQ1:0.348293601132;HAND1,2:0.340246803081;GCM1,2:0.332570823988;ARID5B:0.309089207413;RXRA_VDR{dimer}:0.292122258625;PITX1..3:0.235727867039;POU2F1..3:0.226123155581;ZNF238:0.225878919531;NKX3-1:0.199323335452;HNF4A_NR2F1,2:0.190733854185;ZBTB16:0.177871439317;OCT4_SOX2{dimer}:0.173597767616;PAX8:0.162380885586;NANOG:0.155568428843;NFIL3:0.141228006825;EN1,2:0.129165832893;GFI1:0.110863384943;HOX{A6,A7,B6,B7}:0.10177459471;SREBF1,2:0.0695103995582;PRRX1,2:0.0665019800482;NKX6-1,2:0.062889124139;HLF:0.0439098281534;HBP1_HMGB_SSRP1_UBTF:0.0233124144459;VSX1,2:0.0152408850658;PAX5:-0.00560079314208;HOX{A4,D4}:-0.0649046641502;NKX2-3_NKX2-5:-0.0658031341271;REST:-0.0937088341895;HES1:-0.107447886291;IKZF1:-0.137701452483;ALX1:-0.140283592704;PAX2:-0.141082773441;POU1F1:-0.151639532662;MYOD1:-0.166112606825;AR:-0.172422511288;RFX2..5_RFXANK_RFXAP:-0.185973451892;AHR_ARNT_ARNT2:-0.18599235354;SOX{8,9,10}:-0.206319434778;PRDM1:-0.21519425957;FOX{I1,J2}:-0.219777192888;NFKB1_REL_RELA:-0.226156470494;UFEwm:-0.2274076757;CDX1,2,4:-0.227857826464;ATF5_CREB3:-0.229038112231;T:-0.236856573381;PBX1:-0.237139221072;EP300:-0.246725632103;FOXM1:-0.24785020697;POU6F1:-0.258128263212;PPARG:-0.270000760338;MYBL2:-0.273620206826;MTF1:-0.273871244055;IRF7:-0.2738971037;FOXP1:-0.290248694147;IRF1,2:-0.291791455389;TOPORS:-0.30613402942;HSF1,2:-0.309272757614;ONECUT1,2:-0.311625337211;HNF1A:-0.31294941085;GZF1:-0.335948620778;NFE2:-0.339703138322;MYFfamily:-0.348009806627;NR1H4:-0.353625366743;FOSL2:-0.359338978966;DBP:-0.369651065885;ZEB1:-0.371952889492;SOX17:-0.372555195831;TLX2:-0.375595332898;RORA:-0.377860339666;HMX1:-0.379298473878;SNAI1..3:-0.400385567058;NKX2-1,4:-0.410648012572;ZNF384:-0.428132757626;STAT5{A,B}:-0.433690632679;RBPJ:-0.456850954879;HIF1A:-0.476545455475;TGIF1:-0.481838979176;POU3F1..4:-0.500358648944;NFE2L2:-0.504260979012;XBP1:-0.511713378386;NFE2L1:-0.513280959065;SPZ1:-0.515223893538;MEF2{A,B,C,D}:-0.518675197964;FOX{F1,F2,J1}:-0.521678396194;CREB1:-0.525257864839;FOS_FOS{B,L1}_JUN{B,D}:-0.526701235654;RREB1:-0.584297523375;BACH2:-0.587435300386;PAX6:-0.59493288064;HOXA9_MEIS1:-0.60432328866;LEF1_TCF7_TCF7L1,2:-0.625948231049;ZNF423:-0.628800738992;PDX1:-0.656576792822;RXR{A,B,G}:-0.657559294394;MZF1:-0.663133488701;ESR1:-0.672811342439;ATF4:-0.702169926226;FOXN1:-0.704863255701;EVI1:-0.72432837947;PAX4:-0.736491033641;ALX4:-0.75851729288;NHLH1,2:-0.801412434895;SRF:-0.843251926784;GTF2A1,2:-0.850169114423;ZBTB6:-0.857485639481;LMO2:-0.860197365272;LHX3,4:-0.899137257785;MAFB:-0.904887603027;TAL1_TCF{3,4,12}:-0.916468916977;ZNF148:-0.919787712752;EBF1:-0.922680173021;FOXO1,3,4:-0.93337063271;BPTF:-0.93382649665;TP53:-0.970104945236;HMGA1,2:-0.976410971308;RFX1:-0.98020700609;TFAP2{A,C}:-0.982824664272;ZFP161:-0.984051931461;ADNP_IRX_SIX_ZHX:-0.994064543733;FOXL1:-1.0304703059;CDC5L:-1.05128700985;SOX5:-1.0532960674;GTF2I:-1.05818570199;ZIC1..3:-1.05999748215;MTE{core}:-1.09854689755;NFIX:-1.1244486796;NR3C1:-1.14988747854;TLX1..3_NFIC{dimer}:-1.18101083228;TFCP2:-1.19971643003;PAX1,9:-1.21520081612;SMAD1..7,9:-1.22841482146;STAT2,4,6:-1.23581093606;TFAP4:-1.2425827708;MED-1{core}:-1.30604743678;TEAD1:-1.31063590068;SP1:-1.32439622133;TBX4,5:-1.34141495552;NFATC1..3:-1.35167589785;ATF2:-1.35795676084;GLI1..3:-1.36161695242;HIC1:-1.39024483808;TBP:-1.41001430299;SOX2:-1.45514277181;STAT1,3:-1.48589770496;ATF6:-1.51752521759;GFI1B:-1.52741655813;PATZ1:-1.57552798655;TFAP2B:-1.58496211421;FOX{D1,D2}:-1.62694136197;JUN:-1.72460706571;XCPE1{core}:-1.76266522846;EGR1..3:-1.83691570777;MAZ:-1.89078906967
|xref=
|xref=
|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_human;search_select_hide=table111:FF:10834-111D6;search_select_hide=table117:FF:10834-111D6
}}
}}

Latest revision as of 15:08, 3 June 2020

Name:acute myeloid leukemia (FAB M5) cell line:U-937 DE-4
Species:Human (Homo sapiens)
Library ID:CNhs13058
Sample type:cell lines
Genomic View: UCSC
RefEX:Specific genes
CAGEd-oPOSSUM:link
ZENBU report :link
Additional information
Sample information
strainNA
tissueblood
dev stageNA
sexmale
age37
cell typemonoblast
cell lineU-937 DE-4
companyRIKEN Bioresource centre
collaborationYukio Nakamura (RIKEN BRC)
External link for information[{{{sample_info_link}}} {{{sample_info_link}}}]
RNA information
lot numberNA
catalog numberNA
sample typetotal RNA
extraction protocol (Details)OP-RNA-extraction-totalRNA-miRNeasy_Mini-v1.0

CAGE Accession numbers
MethodSample accession id
CAGE  SAMD00004814
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs13058 CAGE DRX007816 DRR008688
Accession ID Hg19

Library idBAMCTSS
CNhs13058 DRZ000113 DRZ001498
Accession ID Hg38

Library idBAMCTSS
CNhs13058 DRZ011463 DRZ012848
Download raw sequence, BAM & CTSS
Hg19
FastaBAMCTSS
downloaddownloaddonwload
Hg38
BAMCTSS
downloaddonwload


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-penis0.244
C106-Hep2-epitheloid-placenta-cervical-rectal-anaplastic-glassy0
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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: CNhs13058

Jaspar motifP-value
MA0002.23.88778e-4
MA0003.10.907
MA0004.10.0101
MA0006.10.262
MA0007.10.95
MA0009.10.402
MA0014.10.955
MA0017.10.00439
MA0018.28.43162e-4
MA0019.10.435
MA0024.12.47799e-7
MA0025.10.837
MA0027.10.337
MA0028.11.07258e-4
MA0029.10.61
MA0030.10.0122
MA0031.10.0191
MA0035.20.305
MA0038.12.49317e-4
MA0039.20.902
MA0040.10.352
MA0041.10.266
MA0042.10.822
MA0043.10.712
MA0046.10.26
MA0047.20.626
MA0048.10.255
MA0050.10.327
MA0051.10.202
MA0052.10.00551
MA0055.10.182
MA0057.10.562
MA0058.10.00201
MA0059.14.03269e-5
MA0060.10.491
MA0061.10.308
MA0062.22.2347e-8
MA0065.20.00226
MA0066.10.228
MA0067.10.613
MA0068.19.80967e-4
MA0069.10.355
MA0070.10.815
MA0071.10.013
MA0072.10.415
MA0073.10.613
MA0074.10.84
MA0076.13.47829e-5
MA0077.10.395
MA0078.10.495
MA0079.20.331
MA0080.27.70242e-13
MA0081.10.00171
MA0083.10.00248
MA0084.10.365
MA0087.10.234
MA0088.10.00409
MA0090.11.95069e-5
MA0091.10.941
MA0092.10.298
MA0093.10.00711
MA0099.20.00378
MA0100.10.00124
MA0101.10.694
MA0102.20.158
MA0103.10.582
MA0104.24.13049e-5
MA0105.10.00191
MA0106.10.299
MA0107.10.191
MA0108.26.61195e-14
MA0111.10.45
MA0112.20.0229
MA0113.10.735
MA0114.10.00933
MA0115.10.0176
MA0116.11.97618e-5
MA0117.10.979
MA0119.10.574
MA0122.10.362
MA0124.10.371
MA0125.10.49
MA0131.10.299
MA0135.10.918
MA0136.13.49391e-22
MA0137.20.0035
MA0138.20.988
MA0139.10.238
MA0140.10.336
MA0141.10.00634
MA0142.10.123
MA0143.10.518
MA0144.10.377
MA0145.10.561
MA0146.10.18
MA0147.11.42692e-5
MA0148.10.334
MA0149.10.151
MA0150.10.851
MA0152.10.334
MA0153.10.0368
MA0154.10.0301
MA0155.10.88
MA0156.16.73952e-16
MA0157.10.361
MA0159.10.0573
MA0160.10.0404
MA0162.10.666
MA0163.12.86522e-15
MA0164.10.564
MA0258.10.0685
MA0259.10.0341



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: CNhs13058

Novel motifP-value
10.00947
100.00827
1000.312
1010.262
1020.347
1030.372
1040.943
1050.27
1060.579
1070.366
1080.982
1090.0485
110.0493
1100.0643
1110.0095
1120.179
1130.556
1140.0683
1150.595
1160.279
1170.0119
1180.0883
1190.675
120.994
1200.233
1210.674
1220.994
1230.162
1240.0625
1250.0169
1260.0873
1270.0713
1280.511
1290.555
130.0222
1300.75
1310.259
1320.45
1330.899
1340.844
1350.37
1360.214
1370.126
1380.449
1390.398
140.975
1400.0751
1410.494
1420.606
1430.228
1440.672
1450.949
1460.841
1470.158
1480.0691
1490.539
150.0743
1500.841
1510.924
1520.084
1530.304
1540.844
1550.2
1560.868
1570.171
1580.853
1590.892
160.641
1600.209
1610.0377
1620.834
1630.389
1640.0804
1650.0789
1660.256
1670.25
1680.733
1690.228
170.712
180.304
190.486
20.726
200.744
210.0255
220.68
230.24
240.0227
250.153
260.0656
270.413
280.85
290.036
30.0634
300.2
310.634
320.621
330.422
340.887
350.248
360.0417
370.301
380.31
390.347
40.0957
400.167
410.336
420.209
430.498
440.0122
450.453
460.0941
470.0454
480.0255
490.284
50.575
500.904
510.885
520.154
530.738
540.895
550.634
560.81
570.0696
580.153
590.387
60.303
600.971
610.0366
620.0857
630.467
640.107
650.967
660.278
670.399
680.724
690.576
70.09
700.916
710.00831
720.718
730.586
740.282
750.00869
760.57
770.79
780.0305
790.829
80.0436
800.874
810.127
820.482
830.68
840.566
850.382
860.383
870.235
880.43
890.37
90.56
900.184
910.97
920.694
930.172
940.387
950.0756
960.554
970.304
980.304
990.368



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: CNhs13058


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)
0000988 (hematopoietic cell)
0000548 (animal cell)
0000763 (myeloid cell)
0002371 (somatic cell)
0000255 (eukaryotic cell)

DOID: Disease
4 (disease)
0050686 (organ system cancer)
162 (cancer)
2531 (hematologic cancer)
14566 (disease of cellular proliferation)
0060083 (immune system cancer)
1240 (leukemia)
8692 (myeloid leukemia)

FF: FANTOM5
0000102 (sample by type)
0000003 (cell line sample)
0000210 (human sample)
0000101 (sample by species)
0000001 (sample)
0100737 (leukemia cell line sample)
0101035 (hematopoietic cell line sample)
0101883 (acute myeloid leukemia cell line sample)
0100740 (myeloid leukemia cell line 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:0000049 (common myeloid progenitor)
CL:0000134 (mesenchymal cell)

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