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{{f5samples
{{f5samples
|DRA_sample_Accession=CAGE@DRS008377
|DRA_sample_Accession=CAGE@SAMD00004795
|DRA_sample_Accession_RNASeq=sRNA-Seq@SAMD00004795
|accession_numbers=CAGE;DRX008485;DRR009357;DRZ000782;DRZ002167;DRZ012132;DRZ013517
|accession_numbers_RNASeq=sRNA-Seq;DRX037076;DRR041442;DRZ007084
|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0001155,UBERON:0001135,UBERON:0000160,UBERON:0000479,UBERON:0001007,UBERON:0000064,UBERON:0004119,UBERON:0011216,UBERON:0000062,UBERON:0004120,UBERON:0000061,UBERON:0000465,UBERON:0000063,UBERON:0000481,UBERON:0004921,UBERON:0000477,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0002385,UBERON:0010317,UBERON:0001015,UBERON:0001555,UBERON:0000059,UBERON:0002204,UBERON:0005409,UBERON:0000383
|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0001155,UBERON:0001135,UBERON:0000160,UBERON:0000479,UBERON:0001007,UBERON:0000064,UBERON:0004119,UBERON:0011216,UBERON:0000062,UBERON:0004120,UBERON:0000061,UBERON:0000465,UBERON:0000063,UBERON:0000481,UBERON:0004921,UBERON:0000477,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0002385,UBERON:0010317,UBERON:0001015,UBERON:0001555,UBERON:0000059,UBERON:0002204,UBERON:0005409,UBERON:0000383
|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000548,CL:0002371,CL:0000393,CL:0000183,CL:0000187,CL:0000192,CL:0000211,CL:0000255,CL:0002504,CL:1000279,CL:1000280
|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000548,CL:0002371,CL:0000393,CL:0000183,CL:0000187,CL:0000192,CL:0000211,CL:0000255,CL:0002504,CL:1000279,CL:1000280
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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=chr6:134210243..134210257,+!p1@TCF21!2.39!244.34!TCF21;;chr16:86544113..86544145,+!p1@FOXF1!1.78!71.98!FOXF1;;chr4:174451370..174451387,-!p1@HAND2!1.45!26.86!HAND2;;chr15:42749722..42749739,-!p2@ZFP106!1.43!46.06!ZFP106;;chr5:134369879..134369898,-!p2@PITX1!1.39!23.80!PITX1;;chr5:134369905..134369972,-!p1@PITX1!1.29!28.51!PITX1;;chr7:27224842..27224872,-!p1@HOXA11!1.27!17.55!HOXA11;;chr11:46299199..46299233,+!p1@CREB3L1!1.26!87.77!CREB3L1;;chr7:27192185..27192209,-!p1@HOXA3!1.18!14.26!HOXA3;;chr2:185463247..185463263,+!p1@ZNF804A!1.17!24.27!ZNF804A;;chr7:27224795..27224840,-!p2@HOXA11!1.17!13.67!HOXA11;;chr5:92918919..92918942,+!p1@NR2F1!1.15!58.79!NR2F1;;chr4:174450089..174450153,-!p2@HAND2!1.15!13.19!HAND2;;chr7:19157248..19157268,-!p1@TWIST1!1.13!34.28!TWIST1;;chr12:66218255..66218304,+!p3@HMGA2!1.09!30.75!HMGA2;;chr17:46682321..46682362,-!p1@HOXB6!1.07!10.84!HOXB6;;chr15:57511609..57511651,+!p2@TCF12!1.05!17.32!TCF12;;chr19:46801639..46801699,+!p1@HIF3A!1.05!10.13!HIF3A;;chr11:46299539..46299620,+!p2@CREB3L1!1.01!15.90!CREB3L1;;chr10:101292684..101292706,+!p1@NKX2-3!1.01!9.31!NKX2-3;;chr7:27205136..27205164,-!p1@HOXA9!1.01!9.19!HOXA9;;chr12:66218598..66218645,+!p2@HMGA2!0.98!40.41!HMGA2;;chr8:25902876..25902936,-!p1@EBF2!0.95!7.89!EBF2;;chr2:176969228..176969260,+!p1@HOXD11!0.93!7.42!HOXD11;;chr19:45260775..45260838,+!p5@BCL3!0.92!9.66!BCL3;;chr5:92918956..92918969,+!p4@NR2F1!0.91!7.89!NR2F1;;chr14:62162285..62162296,+!p3@HIF1A!0.89!36.76!HIF1A;;chr17:46622114..46622138,-!p4@HOXB2!0.89!10.60!HOXB2;;chr15:83953397..83953425,-!p1@BNC1!0.89!7.89!BNC1;;chr17:46667594..46667619,-!p1@HOXB3!0.89!6.72!HOXB3;;chr7:27205106..27205134,-!p2@HOXA9!0.88!6.60!HOXA9;;chr12:66218836..66218888,+!p1@HMGA2!0.87!64.09!HMGA2;;chr2:5832508..5832524,+!p1@SOX11!0.87!6.36!SOX11;;chr2:66662281..66662308,+!p1@MEIS1!0.86!22.97!MEIS1;;chr8:49833948..49833973,-!p2@SNAI2!0.85!41.47!SNAI2;;chr2:239756671..239756732,+!p1@TWIST2!0.85!20.38!TWIST2;;chr14:62162258..62162269,+!p2@HIF1A!0.84!60.20!HIF1A;;chr15:37392724..37392757,-!p1@MEIS2!0.84!28.98!MEIS2;;chr7:27213893..27213954,-!p1@HOXA10!0.84!5.89!HOXA10;;chr12:66218212..66218244,+!p5@HMGA2!0.83!8.60!HMGA2;;chr17:46622070..46622109,-!p1@HOXB2!0.81!12.72!HOXB2;;chr17:1959369..1959388,+!p2@HIC1!0.80!14.96!HIC1;;chr18:19749541..19749557,+!p1@GATA6!0.76!16.14!GATA6;;chr17:59477233..59477263,+!p1@TBX2!0.76!15.79!TBX2;;chr2:121493425..121493474,+!p1@GLI2!0.76!11.19!GLI2;;chr9:16870659..16870675,-!p2@BNC2!0.76!6.01!BNC2;;chr8:49833978..49833996,-!p1@SNAI2!0.74!102.38!SNAI2;;chr2:19558373..19558392,-!p1@OSR1!0.73!12.96!OSR1;;chr2:66662249..66662267,+!p2@MEIS1!0.72!18.14!MEIS1;;chr7:19157043..19157088,-!p2@TWIST1!0.72!11.55!TWIST1;;chr17:46675558..46675577,-!p2@HOXB6!0.72!4.24!HOXB6;;chr2:176969179..176969226,+!p2@HOXD11!0.72!4.24!HOXD11;;chr12:66218183..66218209,+!p4@HMGA2!0.71!8.60!HMGA2;;chr10:131762504..131762555,-!p1@EBF3!0.70!4.01!EBF3;;chr9:16870710..16870763,-!p1@BNC2!0.69!7.19!BNC2;;chr18:53068911..53068935,-!p4@TCF4!0.69!4.48!TCF4;;chr20:50721803..50721857,-!p2@ZFP64!0.68!6.36!ZFP64;;chr7:27196267..27196311,-!p1@HOXA7!0.68!3.77!HOXA7;;chr2:239756739..239756755,+!p2@TWIST2!0.67!6.72!TWIST2;;chr17:46675420..46675465,-!p3@HOXB6!0.67!4.36!HOXB6;;chr5:92918894..92918912,+!p2@NR2F1!0.66!13.19!NR2F1;;chr17:59477275..59477286,+!p3@TBX2!0.66!4.95!TBX2;;chr1:54204818..54204870,-!p@chr1:54204818..54204870,-!0.66!3.89!GLIS1;;chr11:46299443..46299459,+!p4@CREB3L1!0.66!3.53!CREB3L1;;chr8:106330656..106330684,+!p1@ZFPM2!0.65!10.25!ZFPM2;;chr11:61520075..61520136,+!p1@C11orf9!0.65!8.13!C11orf9;;chr5:92919375..92919438,+!p6@NR2F1!0.65!3.77!NR2F1;;chr12:66218904..66218913,+!p11@HMGA2!0.65!3.42!HMGA2;;chr1:164528410..164528428,+!p1@PBX1!0.64!29.45!PBX1;;chr17:59477197..59477212,+!p2@TBX2!0.64!6.36!TBX2;;chr18:19749386..19749404,+!p2@GATA6!0.64!5.18!GATA6;;chr17:46687959..46688007,-!p2@HOXB7!0.64!4.95!HOXB7;;chr17:1958388..1958404,+!p1@HIC1!0.63!24.50!HIC1;;chr7:42276787..42276815,-!p1@GLI3!0.63!9.90!GLI3;;chr1:164528445..164528459,+!p2@PBX1!0.62!11.31!PBX1;;chr17:46621937..46621966,-!p2@HOXB2!0.62!9.78!HOXB2;;chr12:66218573..66218596,+!p7@HMGA2!0.62!5.07!HMGA2;;chr6:85473156..85473210,-!p2@TBX18!0.62!4.01!TBX18;;chr17:46622205..46622218,-!p3@HOXB2!0.62!3.77!HOXB2;;chr12:24715376..24715432,-!p1@SOX5!0.61!4.12!SOX5;;chr17:46667628..46667642,-!p2@HOXB3!0.61!3.06!HOXB3;;chr6:45390025..45390076,+!p2@RUNX2!0.60!8.25!RUNX2;;chr2:66662895..66662907,+!p3@MEIS1!0.59!3.77!MEIS1;;chr14:62162224..62162254,+!p1@HIF1A!0.58!500.70!HIF1A;;chr2:121493492..121493537,+!p2@GLI2!0.58!5.18!GLI2;;chr17:46688334..46688385,-!p1@HOXB7!0.58!4.36!HOXB7;;chr15:37392094..37392116,-!p6@MEIS2!0.58!3.65!MEIS2;;chr4:174451350..174451363,-!p3@HAND2!0.58!2.83!HAND2;;chr19:57352087..57352102,-!p1@PEG3,p1@ZIM2!0.58!2.83!PEG3;;chr20:42543441..42543497,+!p1@TOX2!0.57!14.73!TOX2;;chr5:92919100..92919135,+!p3@NR2F1!0.57!3.42!NR2F1;;chr11:32457075..32457095,-!p1@WT1!0.57!2.71!WT1;;chr8:48650715..48650735,-!p1@CEBPD!0.5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|fantom_cat=http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000056;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000187;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000192;;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:1000280;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0000160;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0001007;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0001135;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0001155;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0002385;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0005409
|ffid_belonging_in_development=CL:0000355,CL:0000222,CL:0000514
|ffid_belonging_in_development=CL:0000355,CL:0000222,CL:0000514
|fonse_cell_line=
|fonse_cell_line=
Line 39: Line 44:
|fonse_treatment_closure=
|fonse_treatment_closure=
|has_quality=
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|hg19ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Smooth%2520Muscle%2520Cells%2520-%2520Colonic%252c%2520donor3.CNhs12007.11396-118D1.hg19.ctss.bed.gz
|hg19fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Smooth%2520Muscle%2520Cells%2520-%2520Colonic%252c%2520donor3.CNhs12007.11396-118D1.hg19.nobarcode.rdna.fa.gz
|hg38bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.hCAGE/Smooth%2520Muscle%2520Cells%2520-%2520Colonic%252c%2520donor3.CNhs12007.11396-118D1.hg38.nobarcode.bam
|hg38ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.hCAGE/Smooth%2520Muscle%2520Cells%2520-%2520Colonic%252c%2520donor3.CNhs12007.11396-118D1.hg38.nobarcode.ctss.bed.gz
|id=FF:11396-118D1
|id=FF:11396-118D1
|is_a=EFO:0002091;;FF:0000181
|is_a=EFO:0002091;;FF:0000181
|is_obsolete=
|is_obsolete=
|library_ids=CNhs12007
|library_id=CNhs12007
|library_id_phase_based=2:CNhs12007
|microRNAs=
|microRNAs_nn=
|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/human#cage;sample;11396
|microRNAs_nonnovel_srna=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2016/vis_viewer/#/human#srna;sample;SRhi10006.TAGCTT.11396
|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/human#cage;sample;11396
|microRNAs_novel_srna=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2016/vis_viewer_novel/#/human#srna;sample;SRhi10006.TAGCTT.11396
|name=Smooth Muscle Cells - Colonic, donor3
|name=Smooth Muscle Cells - Colonic, donor3
|namespace=FANTOM5
|namespace=FANTOM5
Line 48: Line 65:
|profile_cagescan=,,,
|profile_cagescan=,,,
|profile_hcage=CNhs12007,LSID837,release011,COMPLETED
|profile_hcage=CNhs12007,LSID837,release011,COMPLETED
|profile_rnaseq=,,,
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|refex=http://refex.dbcls.jp/genelist.php?lang
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Line 64: Line 82:
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|sample_category=primary cells
Line 87: Line 106:
|top_motifs=TAL1_TCF{3,4,12}:1.88389853078;NKX3-1:1.51976971087;PAX1,9:1.24794116654;GZF1:1.20530976155;ALX4:1.18765030027;CDC5L:1.13130546675;TFAP4:1.1012171132;HOXA9_MEIS1:0.959090940642;HSF1,2:0.951589105439;ESR1:0.915741453776;GFI1B:0.874923132772;HOX{A5,B5}:0.864391483614;UFEwm:0.862365922466;GFI1:0.847827815801;NR3C1:0.832386247492;TEAD1:0.825739729018;ZNF238:0.789926050486;TOPORS:0.789681818339;YY1:0.772919588957;ATF6:0.766684249734;EN1,2:0.742765120986;EBF1:0.738126227757;TEF:0.735677472178;GLI1..3:0.720296192623;SOX17:0.717289985118;TP53:0.668995411781;NKX2-2,8:0.667428784027;TLX1..3_NFIC{dimer}:0.640684882504;NANOG{mouse}:0.636258985891;RXRA_VDR{dimer}:0.614499431305;DBP:0.589367486273;PBX1:0.581639386582;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:0.572591403187;SRF:0.566342253869;POU3F1..4:0.566209175561;RXR{A,B,G}:0.557444366374;KLF4:0.521718727338;GTF2A1,2:0.520599133391;E2F1..5:0.511878880046;TBX4,5:0.507058986731;TFDP1:0.504711694776;MZF1:0.499601975851;PAX5:0.483607058359;AIRE:0.475028495141;NFY{A,B,C}:0.474623421077;IKZF1:0.468477931763;SPZ1:0.43297282439;NFIX:0.429707593899;LHX3,4:0.420957903413;MYBL2:0.416297062781;NKX2-1,4:0.402907088435;POU6F1:0.364279146164;TBP:0.354137525225;GTF2I:0.353418528254;NR6A1:0.345970558812;HES1:0.34198428137;ELK1,4_GABP{A,B1}:0.326738728085;CRX:0.322217860238;PATZ1:0.319297218172;POU1F1:0.284427509197;ESRRA:0.284094969;EVI1:0.279783466315;ONECUT1,2:0.274411178934;ZNF423:0.273414372865;HOX{A4,D4}:0.27048585281;PPARG:0.265961449986;ZIC1..3:0.263675963113;STAT5{A,B}:0.242467044382;ZNF143:0.241005252966;bHLH_family:0.234287887362;TFCP2:0.227807508889;XCPE1{core}:0.208466731712;HIC1:0.202257914657;SP1:0.193342709708;NFE2L2:0.188693500867;TFAP2{A,C}:0.185519650511;MAZ:0.173096817629;MYB:0.151972634524;ZNF384:0.150237627466;GCM1,2:0.144059723202;HNF4A_NR2F1,2:0.13975725132;HAND1,2:0.139471417749;NFATC1..3:0.139402310031;HMGA1,2:0.122727002915;PAX4:0.12077061781;SREBF1,2:0.10750351697;NFE2L1:0.106324121425;FOXQ1:0.0943567440045;NRF1:0.0887618413832;AHR_ARNT_ARNT2:0.0813487792787;HLF:0.0762055701651;FOXM1:0.0747935009201;MYFfamily:0.0701811642261;ZBTB16:0.0692091804028;ARID5B:0.0587077583746;TLX2:0.0578919464188;XBP1:0.0574465928266;NR1H4:0.0507033437286;HNF1A:0.0482679370422;CDX1,2,4:0.0415204698491;ADNP_IRX_SIX_ZHX:0.0334923117187;LEF1_TCF7_TCF7L1,2:0.0327818072718;PAX3,7:0.0286261890362;NKX6-1,2:0.0116707973726;GATA4:-0.00565777464427;MAFB:-0.00607396043896;PAX8:-0.0122751268336;NHLH1,2:-0.0155692453708;EGR1..3:-0.0218057390699;MTE{core}:-0.028544436836;ZNF148:-0.0354616814927;NR5A1,2:-0.0470071794235;PRRX1,2:-0.0678566660153;FOXD3:-0.0711728485276;ZFP161:-0.0745903801718;STAT1,3:-0.0826220282908;CEBPA,B_DDIT3:-0.105065099125;AR:-0.107634500886;NKX2-3_NKX2-5:-0.108916724859;ZBTB6:-0.131956426806;FOS_FOS{B,L1}_JUN{B,D}:-0.13538573178;BACH2:-0.137101877299;PRDM1:-0.156460473006;POU5F1:-0.17036390603;TFAP2B:-0.180834314142;HMX1:-0.180911443831;REST:-0.208587047418;RFX1:-0.219275367006;FOXP1:-0.223300171491;MTF1:-0.232174351857;FOX{I1,J2}:-0.241488733848;FOX{F1,F2,J1}:-0.245369749148;PAX2:-0.249200295769;JUN:-0.263820806902;FOSL2:-0.265608473867;NFE2:-0.277378325933;ATF2:-0.27843566048;STAT2,4,6:-0.280639736139;CREB1:-0.28354326448;HIF1A:-0.294315828305;FOXP3:-0.30720848095;OCT4_SOX2{dimer}:-0.32631950142;SMAD1..7,9:-0.326618721332;RUNX1..3:-0.327601146787;SOX5:-0.328487952426;MED-1{core}:-0.336069321238;IRF7:-0.341496878909;ELF1,2,4:-0.360684855913;TGIF1:-0.361828437133;HBP1_HMGB_SSRP1_UBTF:-0.387771566577;NFKB1_REL_RELA:-0.393387832098;HOX{A6,A7,B6,B7}:-0.405387981873;SOX{8,9,10}:-0.416655883401;RREB1:-0.426808807485;RFX2..5_RFXANK_RFXAP:-0.428034314751;NANOG:-0.437423818738;NKX3-2:-0.446497042735;PAX6:-0.450595219997;MEF2{A,B,C,D}:-0.460064929508;PITX1..3:-0.468451754378;IRF1,2:-0.475819093313;FOXA2:-0.49174152985;PDX1:-0.497460395584;FOXL1:-0.518640089423;ALX1:-0.520550154686;ETS1,2:-0.523747372916;POU2F1..3:-0.530432364014;DMAP1_NCOR{1,2}_SMARC:-0.536798871635;GATA6:-0.537214837739;SOX2:-0.540603592024;SPIB:-0.543144968305;ATF5_CREB3:-0.564002781686;BREu{core}:-0.564761747998;SPI1:-0.588669691544;BPTF:-0.597006545575;RXR{A,B,G}_{NR1H2,PPAR}dimers:-0.601661583451;ATF4:-0.623633829933;FOXN1:-0.630722571782;FOXO1,3,4:-0.631199393585;T:-0.633521907408;NFIL3:-0.636497435949;RBPJ:-0.709415184896;CUX2:-0.714547617247;LMO2:-0.732497245607;RORA:-0.737425359731;FOX{D1,D2}:-0.763989542139;IKZF2:-0.76909444377;SNAI1..3:-0.825253459119;EP300:-0.907757050579;ZEB1:-0.925616237798;VSX1,2:-0.998863784944;MYOD1:-1.07903687138
|top_motifs=TAL1_TCF{3,4,12}:1.88389853078;NKX3-1:1.51976971087;PAX1,9:1.24794116654;GZF1:1.20530976155;ALX4:1.18765030027;CDC5L:1.13130546675;TFAP4:1.1012171132;HOXA9_MEIS1:0.959090940642;HSF1,2:0.951589105439;ESR1:0.915741453776;GFI1B:0.874923132772;HOX{A5,B5}:0.864391483614;UFEwm:0.862365922466;GFI1:0.847827815801;NR3C1:0.832386247492;TEAD1:0.825739729018;ZNF238:0.789926050486;TOPORS:0.789681818339;YY1:0.772919588957;ATF6:0.766684249734;EN1,2:0.742765120986;EBF1:0.738126227757;TEF:0.735677472178;GLI1..3:0.720296192623;SOX17:0.717289985118;TP53:0.668995411781;NKX2-2,8:0.667428784027;TLX1..3_NFIC{dimer}:0.640684882504;NANOG{mouse}:0.636258985891;RXRA_VDR{dimer}:0.614499431305;DBP:0.589367486273;PBX1:0.581639386582;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:0.572591403187;SRF:0.566342253869;POU3F1..4:0.566209175561;RXR{A,B,G}:0.557444366374;KLF4:0.521718727338;GTF2A1,2:0.520599133391;E2F1..5:0.511878880046;TBX4,5:0.507058986731;TFDP1:0.504711694776;MZF1:0.499601975851;PAX5:0.483607058359;AIRE:0.475028495141;NFY{A,B,C}:0.474623421077;IKZF1:0.468477931763;SPZ1:0.43297282439;NFIX:0.429707593899;LHX3,4:0.420957903413;MYBL2:0.416297062781;NKX2-1,4:0.402907088435;POU6F1:0.364279146164;TBP:0.354137525225;GTF2I:0.353418528254;NR6A1:0.345970558812;HES1:0.34198428137;ELK1,4_GABP{A,B1}:0.326738728085;CRX:0.322217860238;PATZ1:0.319297218172;POU1F1:0.284427509197;ESRRA:0.284094969;EVI1:0.279783466315;ONECUT1,2:0.274411178934;ZNF423:0.273414372865;HOX{A4,D4}:0.27048585281;PPARG:0.265961449986;ZIC1..3:0.263675963113;STAT5{A,B}:0.242467044382;ZNF143:0.241005252966;bHLH_family:0.234287887362;TFCP2:0.227807508889;XCPE1{core}:0.208466731712;HIC1:0.202257914657;SP1:0.193342709708;NFE2L2:0.188693500867;TFAP2{A,C}:0.185519650511;MAZ:0.173096817629;MYB:0.151972634524;ZNF384:0.150237627466;GCM1,2:0.144059723202;HNF4A_NR2F1,2:0.13975725132;HAND1,2:0.139471417749;NFATC1..3:0.139402310031;HMGA1,2:0.122727002915;PAX4:0.12077061781;SREBF1,2:0.10750351697;NFE2L1:0.106324121425;FOXQ1:0.0943567440045;NRF1:0.0887618413832;AHR_ARNT_ARNT2:0.0813487792787;HLF:0.0762055701651;FOXM1:0.0747935009201;MYFfamily:0.0701811642261;ZBTB16:0.0692091804028;ARID5B:0.0587077583746;TLX2:0.0578919464188;XBP1:0.0574465928266;NR1H4:0.0507033437286;HNF1A:0.0482679370422;CDX1,2,4:0.0415204698491;ADNP_IRX_SIX_ZHX:0.0334923117187;LEF1_TCF7_TCF7L1,2:0.0327818072718;PAX3,7:0.0286261890362;NKX6-1,2:0.0116707973726;GATA4:-0.00565777464427;MAFB:-0.00607396043896;PAX8:-0.0122751268336;NHLH1,2:-0.0155692453708;EGR1..3:-0.0218057390699;MTE{core}:-0.028544436836;ZNF148:-0.0354616814927;NR5A1,2:-0.0470071794235;PRRX1,2:-0.0678566660153;FOXD3:-0.0711728485276;ZFP161:-0.0745903801718;STAT1,3:-0.0826220282908;CEBPA,B_DDIT3:-0.105065099125;AR:-0.107634500886;NKX2-3_NKX2-5:-0.108916724859;ZBTB6:-0.131956426806;FOS_FOS{B,L1}_JUN{B,D}:-0.13538573178;BACH2:-0.137101877299;PRDM1:-0.156460473006;POU5F1:-0.17036390603;TFAP2B:-0.180834314142;HMX1:-0.180911443831;REST:-0.208587047418;RFX1:-0.219275367006;FOXP1:-0.223300171491;MTF1:-0.232174351857;FOX{I1,J2}:-0.241488733848;FOX{F1,F2,J1}:-0.245369749148;PAX2:-0.249200295769;JUN:-0.263820806902;FOSL2:-0.265608473867;NFE2:-0.277378325933;ATF2:-0.27843566048;STAT2,4,6:-0.280639736139;CREB1:-0.28354326448;HIF1A:-0.294315828305;FOXP3:-0.30720848095;OCT4_SOX2{dimer}:-0.32631950142;SMAD1..7,9:-0.326618721332;RUNX1..3:-0.327601146787;SOX5:-0.328487952426;MED-1{core}:-0.336069321238;IRF7:-0.341496878909;ELF1,2,4:-0.360684855913;TGIF1:-0.361828437133;HBP1_HMGB_SSRP1_UBTF:-0.387771566577;NFKB1_REL_RELA:-0.393387832098;HOX{A6,A7,B6,B7}:-0.405387981873;SOX{8,9,10}:-0.416655883401;RREB1:-0.426808807485;RFX2..5_RFXANK_RFXAP:-0.428034314751;NANOG:-0.437423818738;NKX3-2:-0.446497042735;PAX6:-0.450595219997;MEF2{A,B,C,D}:-0.460064929508;PITX1..3:-0.468451754378;IRF1,2:-0.475819093313;FOXA2:-0.49174152985;PDX1:-0.497460395584;FOXL1:-0.518640089423;ALX1:-0.520550154686;ETS1,2:-0.523747372916;POU2F1..3:-0.530432364014;DMAP1_NCOR{1,2}_SMARC:-0.536798871635;GATA6:-0.537214837739;SOX2:-0.540603592024;SPIB:-0.543144968305;ATF5_CREB3:-0.564002781686;BREu{core}:-0.564761747998;SPI1:-0.588669691544;BPTF:-0.597006545575;RXR{A,B,G}_{NR1H2,PPAR}dimers:-0.601661583451;ATF4:-0.623633829933;FOXN1:-0.630722571782;FOXO1,3,4:-0.631199393585;T:-0.633521907408;NFIL3:-0.636497435949;RBPJ:-0.709415184896;CUX2:-0.714547617247;LMO2:-0.732497245607;RORA:-0.737425359731;FOX{D1,D2}:-0.763989542139;IKZF2:-0.76909444377;SNAI1..3:-0.825253459119;EP300:-0.907757050579;ZEB1:-0.925616237798;VSX1,2:-0.998863784944;MYOD1:-1.07903687138
|xref=
|xref=
}} {{DRAAccessionNumbers
|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_human;search_select_hide=table111:FF:11396-118D1;search_select_hide=table117:FF:11396-118D1
|DRA_sample_Accession=CAGE@DRS008377
|accession_numbers=DRX008485;DRR009357;DRZ000782;DRZ002167;CAGE
|library_id=CNhs12007
}}
}}

Latest revision as of 17:57, 4 June 2020

Name:Smooth Muscle Cells - Colonic, donor3
Species:Human (Homo sapiens)
Library ID:CNhs12007
Sample type:primary cells
Genomic View: UCSC
RefEX:Specific genes
FANTOM CAT:1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11
CAGEd-oPOSSUM:link
ZENBU report :link
Additional information
Sample information
strainNA
tissuecolon
dev stagefetus
sexunknown
agefetal
cell typesmooth muscle cell
cell lineNA
companySciencell/3H
collaborationFANTOM5 OSC CORE (contact: Al Forrest)
External link for information[{{{sample_info_link}}} {{{sample_info_link}}}]
RNA information
lot number1147
catalog numberSC2945
sample typetotal RNA
extraction protocol (Details)OP-RNA-extraction-totalRNA-TRIzol-isopropanol-v1.0

CAGE Accession numbers
MethodSample accession id
CAGE  SAMD00004795
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs12007 CAGE DRX008485 DRR009357
Accession ID Hg19

Library idBAMCTSS
CNhs12007 DRZ000782 DRZ002167
Accession ID Hg38

Library idBAMCTSS
CNhs12007 DRZ012132 DRZ013517
Download raw sequence, BAM & CTSS
Hg19
FastaBAMCTSS
downloaddownloaddonwload
Hg38
BAMCTSS
downloaddonwload

RNA-Seq Accession numbers
MethodSample accession id
sRNA-Seq  SAMD00004795
Library accession numbers

Library idMethodExp. accession idRun accession id
SRhi10006.TAGCTT sRNA-Seq DRX037076 DRR041442
Accession ID Hg19

Library idBAMCTSS
SRhi10006.TAGCTT DRZ007084


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-penis-0.0199
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-lymphoma0.279
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-Hair0.131
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-Pericytes0.0919
C173-Adipocyte-mature-skin-left-Hepatocyte-Osteoblast-adipose0
C174-CD14-Neutrophils-Smooth-mesothelioma-embryonic-Monocytederived-Eosinophils0
C175-Eosinophils-Neutrophils-CD4-Basophils-CD19-CD8-Natural-0.0175
C176-Eosinophils-Neutrophils-Mast-CD14-CD4-Basophils-CD19-0.127
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-middle-0.166
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-CD140.0484
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-Pericytes0.393
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-mixed0.0478
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-Chondrocyte0.19
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-tongue0
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-thymus0.228
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-glioblastoma0.0919
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-Ewing0.131
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-Smooth0.00733
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-small0.274
C282-acute-B-tonsil-CD19-submaxillary-lymph-throat0
C283-tenocyte-Chondrocyte-mesenchymal-Macrophage-pleomorphic-Synoviocyte-cholangiocellular0
C284-parietal-occipital-medial-temporal-olfactory-locus-hippocampus0.0919
C285-cervical-Hep2-small-colon-temporal-duodenum-bronchogenic0
C286-cerebellum-occipital-optic-parietal-globus-caudate-medial0.0919
C287-Hepatocyte-Chondrocyte-Adipocyte-Synoviocyte-liver-tenocyte-mesenchymal0
C288-Chondrocyte-Renal-Pericytes-Fibroblast-aorta-Smooth-Meningeal0.0484
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-skeletal0.621
C293-CD14-CD14CD16-Basophils-Peripheral-immature-Eosinophils-CD340
C294-CD14-Macrophage-Monocytederived-CD14CD16-Neutrophils-Basophils-Peripheral0
C295-Fibroblast-Smooth-Myoblast-Chondrocyte-hepatic-Synoviocyte-Preadipocyte0.536
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-chorionic0.354
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-hepatic0.494
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-Mesenchymal0.337
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: CNhs12007

Jaspar motifP-value
MA0002.20.012
MA0003.10.657
MA0004.10.963
MA0006.10.399
MA0007.10.421
MA0009.10.12
MA0014.10.722
MA0017.10.269
MA0018.20.015
MA0019.10.136
MA0024.10.0582
MA0025.10.0141
MA0027.10.947
MA0028.10.234
MA0029.10.931
MA0030.10.088
MA0031.10.0189
MA0035.20.0736
MA0038.10.104
MA0039.20.2
MA0040.10.729
MA0041.10.626
MA0042.10.491
MA0043.10.054
MA0046.10.443
MA0047.20.0358
MA0048.10.0171
MA0050.11.01529e-4
MA0051.13.48145e-4
MA0052.10.00881
MA0055.10.0295
MA0057.10.822
MA0058.10.998
MA0059.10.775
MA0060.10.00165
MA0061.11.45858e-5
MA0062.20.0648
MA0065.20.18
MA0066.10.612
MA0067.10.0168
MA0068.10.121
MA0069.10.169
MA0070.10.388
MA0071.10.586
MA0072.10.213
MA0073.10.528
MA0074.10.456
MA0076.10.706
MA0077.10.472
MA0078.10.832
MA0079.20.606
MA0080.26.50224e-13
MA0081.10.0319
MA0083.10.0383
MA0084.10.332
MA0087.10.726
MA0088.10.0651
MA0090.10.00378
MA0091.10.0447
MA0092.10.936
MA0093.10.845
MA0099.26.64118e-6
MA0100.10.75
MA0101.10.00318
MA0102.20.224
MA0103.11.81982e-4
MA0104.20.175
MA0105.17.24419e-4
MA0106.10.0144
MA0107.11.47627e-4
MA0108.20.0928
MA0111.10.869
MA0112.20.644
MA0113.10.924
MA0114.10.444
MA0115.10.296
MA0116.10.126
MA0117.10.487
MA0119.10.718
MA0122.10.0942
MA0124.10.345
MA0125.10.314
MA0131.10.988
MA0135.10.24
MA0136.15.34058e-12
MA0137.20.395
MA0138.20.434
MA0139.10.277
MA0140.10.534
MA0141.10.7
MA0142.10.164
MA0143.10.639
MA0144.10.295
MA0145.10.958
MA0146.10.487
MA0147.10.145
MA0148.10.0844
MA0149.10.352
MA0150.10.00226
MA0152.10.0912
MA0153.10.313
MA0154.10.0461
MA0155.10.817
MA0156.14.00235e-7
MA0157.10.0452
MA0159.10.0225
MA0160.10.186
MA0162.10.0401
MA0163.10.32
MA0164.10.76
MA0258.10.196
MA0259.10.596



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: CNhs12007

Novel motifP-value
10.338
100.977
1000.156
1010.43
1020.156
1030.745
1040.863
1050.169
1060.134
1070.911
1080.614
1090.418
110.742
1100.476
1110.38
1120.218
1130.13
1140.217
1150.125
1160.16
1170.612
1180.995
1190.117
120.266
1200.204
1210.345
1220.019
1230.0476
1240.0641
1250.265
1260.753
1270.233
1280.706
1290.0455
130.861
1300.0137
1310.577
1320.948
1330.913
1340.446
1350.386
1360.0863
1370.0226
1380.121
1390.113
140.126
1400.227
1410.318
1420.899
1430.343
1440.827
1450.544
1460.802
1470.438
1480.279
1490.803
150.0703
1500.768
1510.919
1520.138
1530.389
1540.819
1555.98858e-4
1560.517
1570.409
1580.00944
1590.177
160.634
1600.911
1610.731
1620.238
1630.947
1640.285
1650.42
1660.0385
1670.321
1680.0929
1690.616
170.605
180.644
190.436
20.905
200.74
210.586
220.83
230.203
240.584
250.14
260.418
270.703
280.166
290.743
30.656
300.617
310.92
325.89085e-11
330.971
340.989
350.418
360.0543
370.893
380.385
390.658
40.145
400.685
410.0073
420.329
430.274
440.659
450.185
460.323
470.607
480.66
490.107
50.181
500.672
510.83
520.604
530.125
540.688
550.58
560.761
570.484
580.0859
590.537
60.632
600.15
610.906
620.055
630.625
640.572
650.525
660.611
670.86
680.83
690.709
70.216
700.00106
710.908
720.457
730.123
740.0717
750.42
760.55
770.777
780.271
790.0504
80.809
800.0528
810.486
820.121
830.987
840.622
850.285
860.578
870.0809
880.532
890.646
90.91
900.576
910.513
920.288
930.0751
940.51
950.257
960.061
970.905
980.174
996.63608e-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: CNhs12007


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)
0000548 (animal cell)
0002371 (somatic cell)
0000393 (electrically responsive cell)
0000183 (contractile cell)
0000187 (muscle cell)
0000192 (smooth muscle cell)
0000211 (electrically active cell)
0000255 (eukaryotic cell)
0002504 (enteric smooth muscle cell)
1000279 (smooth muscle cell of large intestine)
1000280 (smooth muscle cell of colon)

UBERON: Anatomy
0000468 (multi-cellular organism)
0001155 (colon)
0001135 (smooth muscle tissue)
0000160 (intestine)
0000479 (tissue)
0001007 (digestive system)
0000064 (organ part)
0004119 (endoderm-derived structure)
0011216 (organ system subdivision)
0000062 (organ)
0004120 (mesoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000063 (organ segment)
0000481 (multi-tissue structure)
0004921 (subdivision of digestive tract)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0002385 (muscle tissue)
0010317 (germ layer / neural crest derived structure)
0001015 (musculature)
0001555 (digestive tract)
0000059 (large intestine)
0002204 (musculoskeletal system)
0005409 (gastrointestinal system)
0000383 (musculature of body)

FF: FANTOM5
0000102 (sample by type)
0000210 (human sample)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000001 (sample)
0000167 (smooth muscle cell sample)
0000180 (human smooth muscle cell of intestine sample)
0000181 (human smooth muscle of colon 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:0000355 (multi-potent skeletal muscle stem cell)
CL:0000222 (mesodermal cell)
CL:0000514 (smooth muscle myoblast)

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