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{{f5samples
{{f5samples
|DRA_sample_Accession=CAGE@SAMD00004929
|DRA_sample_Accession_RNASeq=sRNA-Seq@SAMD00004929
|accession_numbers=CAGE;DRX008441;DRR009313;DRZ000738;DRZ002123;DRZ012088;DRZ013473
|accession_numbers_RNASeq=sRNA-Seq;DRX037264;DRR041630;DRZ007272
|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000966,UBERON:0000970,UBERON:0000019,UBERON:0000483,UBERON:0000033,UBERON:0000479,UBERON:0004121,UBERON:0000064,UBERON:0010314,UBERON:0000047,UBERON:0000062,UBERON:0000475,UBERON:0000061,UBERON:0000465,UBERON:0000063,UBERON:0004923,UBERON:0001444,UBERON:0000477,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0000119,UBERON:0005388,UBERON:0000020,UBERON:0010371,UBERON:0007625,UBERON:0001781,UBERON:0001032,UBERON:0010317,UBERON:0001782,UBERON:0004088,UBERON:0000153,UBERON:0007811,UBERON:0002104,UBERON:0001802,UBERON:0004456,UBERON:0001456,UBERON:0010230
|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0000966,UBERON:0000970,UBERON:0000019,UBERON:0000483,UBERON:0000033,UBERON:0000479,UBERON:0004121,UBERON:0000064,UBERON:0010314,UBERON:0000047,UBERON:0000062,UBERON:0000475,UBERON:0000061,UBERON:0000465,UBERON:0000063,UBERON:0004923,UBERON:0001444,UBERON:0000477,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0000119,UBERON:0005388,UBERON:0000020,UBERON:0010371,UBERON:0007625,UBERON:0001781,UBERON:0001032,UBERON:0010317,UBERON:0001782,UBERON:0004088,UBERON:0000153,UBERON:0007811,UBERON:0002104,UBERON:0001802,UBERON:0004456,UBERON:0001456,UBERON:0010230
|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000548,CL:0000066,CL:0002371,CL:0000325,CL:0000147,CL:0000255,CL:0000149,CL:0002586
|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000548,CL:0000066,CL:0002371,CL:0000325,CL:0000147,CL:0000255,CL:0000149,CL:0002586
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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=chr11:61520075..61520136,+!p1@C11orf9!2.39!503.83!C11orf9;;chr14:57277178..57277203,-!p1@OTX2!1.83!66.91!OTX2;;chr11:61522844..61522875,+!p2@C11orf9!1.79!60.35!C11orf9;;chr6:1312325..1312340,+!p1@FOXQ1!1.70!79.05!FOXQ1;;chr2:45168834..45168847,+!p2@SIX3!1.57!36.08!SIX3;;chr2:45169193..45169219,+!p3@SIX3!1.55!34.44!SIX3;;chr2:45168875..45168916,+!p1@SIX3!1.50!30.51!SIX3;;chr9:126774018..126774055,+!p1@LHX2!1.49!30.18!LHX2;;chr1:2985760..2985774,+!p1@PRDM16!1.44!26.57!PRDM16;;chr18:19749541..19749557,+!p1@GATA6!1.39!72.82!GATA6;;chr16:1031762..1031781,+!p1@SOX8!1.37!22.63!SOX8;;chr3:25469724..25469773,+!p1@RARB!1.35!30.83!RARB;;chr14:57272369..57272391,-!p2@OTX2!1.32!19.68!OTX2;;chr15:66994885..66994904,+!p7@SMAD6!1.31!19.35!SMAD6;;chr18:19749386..19749404,+!p2@GATA6!1.30!26.90!GATA6;;chr7:100065686..100065701,-!p2@TSC22D4!1.30!19.02!TSC22D4;;chr6:19837592..19837621,+!p1@ID4!1.26!102.34!ID4;;chr11:31832658..31832681,-!p1@PAX6!1.26!17.38!PAX6;;chr2:45169143..45169167,+!p5@SIX3!1.23!16.07!SIX3;;chr5:92918919..92918942,+!p1@NR2F1!1.22!69.21!NR2F1;;chr2:63277948..63277974,+!p1@OTX1!1.22!15.74!OTX1;;chr1:41827095..41827155,+!p1@FOXO6!1.21!20.66!FOXO6;;chr15:66994663..66994680,+!p1@SMAD6!1.18!33.79!SMAD6;;chr19:49864746..49864780,-!p2@TEAD2!1.16!18.37!TEAD2;;chr19:58400344..58400364,-!p2@ZNF814!1.13!18.37!ZNF814;;chr14:57277098..57277116,-!p3@OTX2!1.10!11.48!OTX2;;chr2:5832508..5832524,+!p1@SOX11!1.07!10.82!SOX11;;chr15:66994615..66994630,+!p3@SMAD6!1.06!15.09!SMAD6;;chr12:66218255..66218304,+!p3@HMGA2!1.05!27.55!HMGA2;;chr12:125003087..125003141,-!p4@NCOR2!1.05!13.12!NCOR2;;chr9:126774058..126774081,+!p3@LHX2!1.05!10.17!LHX2;;chrY:21906594..21906622,-!p1@KDM5D!1.04!9.84!KDM5D;;chr15:66994561..66994597,+!p2@SMAD6!1.02!22.96!SMAD6;;chr3:52001448..52001478,-!p2@PCBP4!1.01!130.88!PCBP4;;chr2:45169233..45169244,+!p10@SIX3!1.01!9.18!SIX3;;chr13:72441315..72441454,-!p1@DACH1!1.00!18.37!DACH1;;chr6:21593973..21593988,+!p1@SOX4!0.99!320.80!SOX4;;chr9:126773880..126773895,+!p2@LHX2!0.96!8.20!LHX2;;chr2:16080659..16080685,+!p1@MYCN!0.95!7.87!MYCN;;chr3:128206762..128206781,-!p2@GATA2!0.94!50.19!GATA2;;chr12:26277817..26277863,-!p2@BHLHE41!0.94!10.50!BHLHE41;;chr6:134210243..134210257,+!p1@TCF21!0.93!7.54!TCF21;;chr2:45169179..45169190,+!p8@SIX3!0.93!7.54!SIX3;;chr3:25470156..25470227,+!p2@RARB!0.93!7.54!RARB;;chr20:6748325..6748352,+!p1@BMP2!0.92!10.82!BMP2;;chr12:66218443..66218461,+!p8@HMGA2!0.92!9.51!HMGA2;;chr1:23885981..23886002,-!p1@ID3!0.91!1290.74!ID3;;chr2:45168959..45168990,+!p6@SIX3!0.91!7.22!SIX3;;chr7:150945754..150945789,-!p2@SMARCD3!0.90!22.30!SMARCD3;;chr15:80696703..80696754,+!p1@ARNT2!0.90!9.51!ARNT2;;chr2:45168856..45168867,+!p7@SIX3!0.90!6.89!SIX3;;chr12:124873852..124873881,-!p3@NCOR2!0.89!43.30!NCOR2;;chr20:42574529..42574563,+!p3@TOX2!0.88!6.56!TOX2;;chr6:34204672..34204692,+!p1@HMGA1!0.87!766.90!HMGA1;;chr17:38498402..38498445,+!p3@RARA!0.87!24.27!RARA;;chr14:21994337..21994442,-!p1@SALL2!0.87!18.37!SALL2;;chr16:86600426..86600441,+!p1@FOXC2!0.87!16.73!FOXC2;;chr12:26277956..26277980,-!p1@BHLHE41!0.84!22.30!BHLHE41;;chr2:45168997..45169020,+!p4@SIX3!0.84!5.90!SIX3;;chr11:46299539..46299620,+!p2@CREB3L1!0.83!10.17!CREB3L1;;chr12:66218212..66218244,+!p5@HMGA2!0.83!8.53!HMGA2;;chr17:38498594..38498661,+!p2@RARA!0.82!20.01!RARA;;chr22:38380543..38380569,-!p1@SOX10!0.82!5.58!SOX10;;chr17:70117153..70117174,+!p1@SOX9!0.81!61.01!SOX9;;chr18:19749517..19749531,+!p3@GATA6!0.81!10.17!GATA6;;chr3:52001426..52001447,-!p3@PCBP4!0.80!16.07!PCBP4;;chr5:92918894..92918912,+!p2@NR2F1!0.79!18.37!NR2F1;;chr12:66218183..66218209,+!p4@HMGA2!0.79!10.50!HMGA2;;chr7:44143925..44143970,+!p1@AEBP1!0.78!123.33!AEBP1;;chr16:88519669..88519726,+!p1@ZFPM1!0.78!49.20!ZFPM1;;chr12:66218598..66218645,+!p2@HMGA2!0.78!24.93!HMGA2;;chr6:21597765..21597779,+!p2@SOX4!0.77!43.30!SOX4;;chr12:66218378..66218401,+!p6@HMGA2!0.77!7.87!HMGA2;;chr10:8096772..8096787,+!p2@GATA3!0.77!5.90!GATA3;;chr3:25469815..25469866,+!p3@RARB!0.77!4.92!RARB;;chr10:48355030..48355090,+!p1@ZNF488!0.76!6.23!ZNF488;;chr14:57277163..57277168,-!p4@OTX2!0.75!4.59!OTX2;;chr6:1312155..1312187,+!p2@FOXQ1!0.75!4.59!FOXQ1;;chr1:23886329..23886336,-!p3@ID3!0.75!4.59!ID3;;chr15:66994718..66994729,+!p4@SMAD6!0.75!4.59!SMAD6;;chr18:19749353..19749367,+!p4@GATA6!0.75!4.59!GATA6;;chr18:56940611..56940660,-!p1@RAX!0.75!4.59!RAX;;chr15:83953397..83953425,-!p1@BNC1!0.74!5.25!BNC1;;chr11:46299199..46299233,+!p1@CREB3L1!0.73!24.93!CREB3L1;;chr11:12696071..12696086,+!p3@TEAD1!0.73!5.90!TEAD1;;chr2:25475120..25475176,-!p2@DNMT3A!0.72!5.90!DNMT3A;;chr4:81118647..81118666,+!p1@PRDM8!0.72!5.90!PRDM8;;chr12:66218152..66218174,+!p10@HMGA2!0.72!4.59!HMGA2;;chr17:26697276..26697303,-!p2@SEBOX,p2@VTN!0.72!4.26!SEBOX;;chr19:47523058..47523114,+!p1@NPAS1!0.72!4.26!NPAS1;;chr7:1577899..1577943,+!p3@MAFK!0.72!4.26!MAFK;;chr19:58400372..58400411,-!p1@ZNF814!0.69!22.96!ZNF814;;chr15:37392724..37392757,-!p1@MEIS2!0.69!20.34!MEIS2;;chr16:79633894..79633954,-!p3@MAF!0.69!8.2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|fantom_cat=http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000066;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000147;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0002586;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0000966;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0000970;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0001781;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0007625
|fonse_cell_line=
|fonse_cell_line=
|fonse_cell_line_closure=
|fonse_cell_line_closure=
Line 37: Line 43:
|fonse_treatment_closure=
|fonse_treatment_closure=
|has_quality=
|has_quality=
|hg19bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Retinal%2520Pigment%2520Epithelial%2520Cells%252c%2520donor1.CNhs11338.11528-119I7.hg19.nobarcode.bam
|hg19ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Retinal%2520Pigment%2520Epithelial%2520Cells%252c%2520donor1.CNhs11338.11528-119I7.hg19.ctss.bed.gz
|hg19fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Retinal%2520Pigment%2520Epithelial%2520Cells%252c%2520donor1.CNhs11338.11528-119I7.hg19.nobarcode.rdna.fa.gz
|hg38bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.hCAGE/Retinal%2520Pigment%2520Epithelial%2520Cells%252c%2520donor1.CNhs11338.11528-119I7.hg38.nobarcode.bam
|hg38ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.hCAGE/Retinal%2520Pigment%2520Epithelial%2520Cells%252c%2520donor1.CNhs11338.11528-119I7.hg38.nobarcode.ctss.bed.gz
|id=FF:11528-119I7
|id=FF:11528-119I7
|is_a=EFO:0002091;;FF:0000158
|is_a=EFO:0002091;;FF:0000158
|is_obsolete=
|is_obsolete=
|library_id=CNhs11338
|library_id_phase_based=2:CNhs11338
|microRNAs=
|microRNAs_nn=
|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/human#cage;sample;11528
|microRNAs_nonnovel_srna=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2016/vis_viewer/#/human#srna;sample;SRhi10015.CGTACG.11528
|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/human#cage;sample;11528
|microRNAs_novel_srna=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2016/vis_viewer_novel/#/human#srna;sample;SRhi10015.CGTACG.11528
|name=Retinal Pigment Epithelial Cells, donor1
|name=Retinal Pigment Epithelial Cells, donor1
|namespace=FANTOM5
|namespace=FANTOM5
Line 45: Line 64:
|profile_cagescan=,,,
|profile_cagescan=,,,
|profile_hcage=CNhs11338,LSID768,release014,COMPLETED
|profile_hcage=CNhs11338,LSID768,release014,COMPLETED
|profile_rnaseq=,,,
|profile_rnaseq=
|profile_srnaseq=SRhi10015,,,
|profile_srnaseq=SRhi10015,,,
|refex=http://refex.dbcls.jp/genelist.php?lang
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|sample_category=primary cells
Line 84: Line 105:
|top_motifs=EBF1:2.02684411772;HOX{A6,A7,B6,B7}:1.87244692873;NKX2-1,4:1.72046339462;GTF2A1,2:1.5960834207;RXR{A,B,G}:1.55979922562;PBX1:1.49848127886;PAX1,9:1.45471281454;NANOG:1.36532966048;GLI1..3:1.35102130328;MYOD1:1.27888637113;ZNF423:1.17647791013;TFAP2{A,C}:1.10338932436;TEAD1:1.09019643441;ZNF148:1.02841045782;LHX3,4:1.01026014138;HAND1,2:0.954808995926;TLX1..3_NFIC{dimer}:0.912859864219;ESRRA:0.908156525507;CRX:0.88967862351;PAX5:0.864976205174;bHLH_family:0.835722900615;EN1,2:0.8356067357;T:0.805859073416;RXRA_VDR{dimer}:0.798316326267;STAT5{A,B}:0.797940728245;ZIC1..3:0.77294137591;SOX17:0.766731451963;FOXM1:0.766231176367;NR3C1:0.751002739278;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:0.750611280644;SP1:0.746487208933;TFCP2:0.674862759666;TAL1_TCF{3,4,12}:0.641254147919;HOX{A5,B5}:0.640974194321;SOX2:0.626107135704;HIC1:0.617916779618;LMO2:0.593862343435;PATZ1:0.579344130537;NR6A1:0.577272067394;GFI1B:0.527567702506;ONECUT1,2:0.503665287761;GFI1:0.487621508506;TFAP2B:0.477169044894;RREB1:0.472628784885;FOXL1:0.466803745973;XCPE1{core}:0.462566961505;HNF4A_NR2F1,2:0.452126601694;SOX{8,9,10}:0.451164144072;SNAI1..3:0.447752650382;HSF1,2:0.44769983976;ZEB1:0.43765340305;TBP:0.421688280237;NFY{A,B,C}:0.401777862311;TFDP1:0.3634306962;ZBTB6:0.362276149451;RFX1:0.360441818761;MTE{core}:0.356541210224;GTF2I:0.353063887755;TP53:0.350511232846;POU1F1:0.348481740005;MEF2{A,B,C,D}:0.346866504753;NR5A1,2:0.327492614141;PAX8:0.289037206074;MAZ:0.263070571278;JUN:0.254137805602;PRRX1,2:0.244611464518;ADNP_IRX_SIX_ZHX:0.241294171688;TFAP4:0.237726785268;RORA:0.218494604898;GATA6:0.210932504165;HES1:0.206164559234;E2F1..5:0.190328569456;HOXA9_MEIS1:0.179616558833;LEF1_TCF7_TCF7L1,2:0.175856925411;HNF1A:0.143440848873;ZNF143:0.120736865914;SRF:0.102965847281;KLF4:0.0729251298052;IKZF1:0.0541285928801;NKX6-1,2:0.0478948670879;FOSL2:0.0473468465016;SMAD1..7,9:0.0457197596904;SREBF1,2:0.0245843408846;POU3F1..4:0.0221019977013;BACH2:0.0129931326556;PDX1:0.00452358383343;REST:-0.00858847831321;FOX{D1,D2}:-0.0266289788951;CDC5L:-0.053278989522;UFEwm:-0.0552326310911;EGR1..3:-0.0668755716621;XBP1:-0.0889968181709;OCT4_SOX2{dimer}:-0.097011594417;FOS_FOS{B,L1}_JUN{B,D}:-0.10106826266;ARID5B:-0.108936994712;MZF1:-0.1140794223;NFIL3:-0.125330564647;MYBL2:-0.153596372108;SOX5:-0.18645712798;PPARG:-0.19182791854;POU2F1..3:-0.193987770994;NRF1:-0.22901943192;POU5F1:-0.238614107539;NHLH1,2:-0.248115204971;ALX4:-0.251337466048;NFE2:-0.253218694;EP300:-0.255098736599;FOXQ1:-0.255550581848;HOX{A4,D4}:-0.25621821845;PITX1..3:-0.26581401435;DBP:-0.286642118944;NFE2L2:-0.287375633805;VSX1,2:-0.292219581323;MYFfamily:-0.301346242746;RBPJ:-0.317800255788;NFE2L1:-0.319190451326;GZF1:-0.323089314723;NR1H4:-0.332975589785;SPZ1:-0.334633744018;HMX1:-0.338851111596;BREu{core}:-0.362529497578;NFKB1_REL_RELA:-0.368739707117;EVI1:-0.369550505947;MYB:-0.375620944188;TEF:-0.381359886418;ZFP161:-0.385065093905;YY1:-0.385690748696;ELK1,4_GABP{A,B1}:-0.391649854146;HLF:-0.401295851203;CUX2:-0.407754408612;AIRE:-0.408545257291;RUNX1..3:-0.411630570702;NKX2-3_NKX2-5:-0.423862873769;ESR1:-0.441789837702;RFX2..5_RFXANK_RFXAP:-0.44249481937;NFATC1..3:-0.470829729692;POU6F1:-0.472819033994;ZNF384:-0.47557959536;FOX{F1,F2,J1}:-0.484175667832;NKX3-1:-0.487426624051;ZNF238:-0.489714355028;TOPORS:-0.500517696129;NKX3-2:-0.521307296797;NKX2-2,8:-0.53308397375;TBX4,5:-0.556019515177;PRDM1:-0.561568088234;ATF2:-0.574114594064;FOXA2:-0.590184935943;ETS1,2:-0.596110483492;ATF4:-0.602556906359;SPIB:-0.604686286155;ALX1:-0.632582979254;MED-1{core}:-0.639419565652;NANOG{mouse}:-0.654879089738;PAX4:-0.662759739555;STAT2,4,6:-0.686374165053;AR:-0.694094152265;FOXO1,3,4:-0.697617752433;CEBPA,B_DDIT3:-0.698201705922;GCM1,2:-0.721689030244;MTF1:-0.736998082705;GATA4:-0.74641391393;STAT1,3:-0.753492549842;CDX1,2,4:-0.75709796502;FOXP3:-0.76033176548;FOX{I1,J2}:-0.792871339902;FOXP1:-0.825027943772;AHR_ARNT_ARNT2:-0.826348380084;SPI1:-0.827321254135;RXR{A,B,G}_{NR1H2,PPAR}dimers:-0.827364644531;HIF1A:-0.867635933229;IRF7:-0.873288579956;PAX3,7:-0.874076413928;ATF6:-0.888118021457;PAX6:-0.917452724628;FOXD3:-0.925893264639;IKZF2:-0.935954086519;BPTF:-0.957225856107;ELF1,2,4:-0.981457937944;ATF5_CREB3:-0.983061677645;IRF1,2:-0.995946024281;HBP1_HMGB_SSRP1_UBTF:-1.02966483874;NFIX:-1.06238818731;DMAP1_NCOR{1,2}_SMARC:-1.06892303833;HMGA1,2:-1.09476703523;PAX2:-1.16773258929;TLX2:-1.20799760935;CREB1:-1.22489580411;TGIF1:-1.27802281808;MAFB:-1.2800773942;FOXN1:-1.37401389281;ZBTB16:-1.51351894511
|top_motifs=EBF1:2.02684411772;HOX{A6,A7,B6,B7}:1.87244692873;NKX2-1,4:1.72046339462;GTF2A1,2:1.5960834207;RXR{A,B,G}:1.55979922562;PBX1:1.49848127886;PAX1,9:1.45471281454;NANOG:1.36532966048;GLI1..3:1.35102130328;MYOD1:1.27888637113;ZNF423:1.17647791013;TFAP2{A,C}:1.10338932436;TEAD1:1.09019643441;ZNF148:1.02841045782;LHX3,4:1.01026014138;HAND1,2:0.954808995926;TLX1..3_NFIC{dimer}:0.912859864219;ESRRA:0.908156525507;CRX:0.88967862351;PAX5:0.864976205174;bHLH_family:0.835722900615;EN1,2:0.8356067357;T:0.805859073416;RXRA_VDR{dimer}:0.798316326267;STAT5{A,B}:0.797940728245;ZIC1..3:0.77294137591;SOX17:0.766731451963;FOXM1:0.766231176367;NR3C1:0.751002739278;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:0.750611280644;SP1:0.746487208933;TFCP2:0.674862759666;TAL1_TCF{3,4,12}:0.641254147919;HOX{A5,B5}:0.640974194321;SOX2:0.626107135704;HIC1:0.617916779618;LMO2:0.593862343435;PATZ1:0.579344130537;NR6A1:0.577272067394;GFI1B:0.527567702506;ONECUT1,2:0.503665287761;GFI1:0.487621508506;TFAP2B:0.477169044894;RREB1:0.472628784885;FOXL1:0.466803745973;XCPE1{core}:0.462566961505;HNF4A_NR2F1,2:0.452126601694;SOX{8,9,10}:0.451164144072;SNAI1..3:0.447752650382;HSF1,2:0.44769983976;ZEB1:0.43765340305;TBP:0.421688280237;NFY{A,B,C}:0.401777862311;TFDP1:0.3634306962;ZBTB6:0.362276149451;RFX1:0.360441818761;MTE{core}:0.356541210224;GTF2I:0.353063887755;TP53:0.350511232846;POU1F1:0.348481740005;MEF2{A,B,C,D}:0.346866504753;NR5A1,2:0.327492614141;PAX8:0.289037206074;MAZ:0.263070571278;JUN:0.254137805602;PRRX1,2:0.244611464518;ADNP_IRX_SIX_ZHX:0.241294171688;TFAP4:0.237726785268;RORA:0.218494604898;GATA6:0.210932504165;HES1:0.206164559234;E2F1..5:0.190328569456;HOXA9_MEIS1:0.179616558833;LEF1_TCF7_TCF7L1,2:0.175856925411;HNF1A:0.143440848873;ZNF143:0.120736865914;SRF:0.102965847281;KLF4:0.0729251298052;IKZF1:0.0541285928801;NKX6-1,2:0.0478948670879;FOSL2:0.0473468465016;SMAD1..7,9:0.0457197596904;SREBF1,2:0.0245843408846;POU3F1..4:0.0221019977013;BACH2:0.0129931326556;PDX1:0.00452358383343;REST:-0.00858847831321;FOX{D1,D2}:-0.0266289788951;CDC5L:-0.053278989522;UFEwm:-0.0552326310911;EGR1..3:-0.0668755716621;XBP1:-0.0889968181709;OCT4_SOX2{dimer}:-0.097011594417;FOS_FOS{B,L1}_JUN{B,D}:-0.10106826266;ARID5B:-0.108936994712;MZF1:-0.1140794223;NFIL3:-0.125330564647;MYBL2:-0.153596372108;SOX5:-0.18645712798;PPARG:-0.19182791854;POU2F1..3:-0.193987770994;NRF1:-0.22901943192;POU5F1:-0.238614107539;NHLH1,2:-0.248115204971;ALX4:-0.251337466048;NFE2:-0.253218694;EP300:-0.255098736599;FOXQ1:-0.255550581848;HOX{A4,D4}:-0.25621821845;PITX1..3:-0.26581401435;DBP:-0.286642118944;NFE2L2:-0.287375633805;VSX1,2:-0.292219581323;MYFfamily:-0.301346242746;RBPJ:-0.317800255788;NFE2L1:-0.319190451326;GZF1:-0.323089314723;NR1H4:-0.332975589785;SPZ1:-0.334633744018;HMX1:-0.338851111596;BREu{core}:-0.362529497578;NFKB1_REL_RELA:-0.368739707117;EVI1:-0.369550505947;MYB:-0.375620944188;TEF:-0.381359886418;ZFP161:-0.385065093905;YY1:-0.385690748696;ELK1,4_GABP{A,B1}:-0.391649854146;HLF:-0.401295851203;CUX2:-0.407754408612;AIRE:-0.408545257291;RUNX1..3:-0.411630570702;NKX2-3_NKX2-5:-0.423862873769;ESR1:-0.441789837702;RFX2..5_RFXANK_RFXAP:-0.44249481937;NFATC1..3:-0.470829729692;POU6F1:-0.472819033994;ZNF384:-0.47557959536;FOX{F1,F2,J1}:-0.484175667832;NKX3-1:-0.487426624051;ZNF238:-0.489714355028;TOPORS:-0.500517696129;NKX3-2:-0.521307296797;NKX2-2,8:-0.53308397375;TBX4,5:-0.556019515177;PRDM1:-0.561568088234;ATF2:-0.574114594064;FOXA2:-0.590184935943;ETS1,2:-0.596110483492;ATF4:-0.602556906359;SPIB:-0.604686286155;ALX1:-0.632582979254;MED-1{core}:-0.639419565652;NANOG{mouse}:-0.654879089738;PAX4:-0.662759739555;STAT2,4,6:-0.686374165053;AR:-0.694094152265;FOXO1,3,4:-0.697617752433;CEBPA,B_DDIT3:-0.698201705922;GCM1,2:-0.721689030244;MTF1:-0.736998082705;GATA4:-0.74641391393;STAT1,3:-0.753492549842;CDX1,2,4:-0.75709796502;FOXP3:-0.76033176548;FOX{I1,J2}:-0.792871339902;FOXP1:-0.825027943772;AHR_ARNT_ARNT2:-0.826348380084;SPI1:-0.827321254135;RXR{A,B,G}_{NR1H2,PPAR}dimers:-0.827364644531;HIF1A:-0.867635933229;IRF7:-0.873288579956;PAX3,7:-0.874076413928;ATF6:-0.888118021457;PAX6:-0.917452724628;FOXD3:-0.925893264639;IKZF2:-0.935954086519;BPTF:-0.957225856107;ELF1,2,4:-0.981457937944;ATF5_CREB3:-0.983061677645;IRF1,2:-0.995946024281;HBP1_HMGB_SSRP1_UBTF:-1.02966483874;NFIX:-1.06238818731;DMAP1_NCOR{1,2}_SMARC:-1.06892303833;HMGA1,2:-1.09476703523;PAX2:-1.16773258929;TLX2:-1.20799760935;CREB1:-1.22489580411;TGIF1:-1.27802281808;MAFB:-1.2800773942;FOXN1:-1.37401389281;ZBTB16:-1.51351894511
|xref=
|xref=
|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_human;search_select_hide=table111:FF:11528-119I7;search_select_hide=table117:FF:11528-119I7
}}
}}

Latest revision as of 18:06, 4 June 2020

Name:Retinal Pigment Epithelial Cells, donor1
Species:Human (Homo sapiens)
Library ID:CNhs11338
Sample type:primary cells
Genomic View: UCSC
RefEX:Specific genes
FANTOM CAT:1, 2, 3, 4, 5, 6, 7
CAGEd-oPOSSUM:link
ZENBU report :link
Additional information
Sample information
strainNA
tissueeye
dev stageNA
sexNA
ageNA
cell typeretinal pigment epithelial 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 numberSC6545
sample typetotal RNA
extraction protocol (Details)OP-RNA-extraction-totalRNA-TRIzol-isopropanol-v1.0

CAGE Accession numbers
MethodSample accession id
CAGE  SAMD00004929
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs11338 CAGE DRX008441 DRR009313
Accession ID Hg19

Library idBAMCTSS
CNhs11338 DRZ000738 DRZ002123
Accession ID Hg38

Library idBAMCTSS
CNhs11338 DRZ012088 DRZ013473
Download raw sequence, BAM & CTSS
Hg19
FastaBAMCTSS
downloaddownloaddonwload
Hg38
BAMCTSS
downloaddonwload

RNA-Seq Accession numbers
MethodSample accession id
sRNA-Seq  SAMD00004929
Library accession numbers

Library idMethodExp. accession idRun accession id
SRhi10015.CGTACG sRNA-Seq DRX037264 DRR041630
Accession ID Hg19

Library idBAMCTSS
SRhi10015.CGTACG DRZ007272


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-0.022
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-lymphoma0.00114
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-Pericytes0
C173-Adipocyte-mature-skin-left-Hepatocyte-Osteoblast-adipose0
C174-CD14-Neutrophils-Smooth-mesothelioma-embryonic-Monocytederived-Eosinophils0
C175-Eosinophils-Neutrophils-CD4-Basophils-CD19-CD8-Natural-0.0812
C176-Eosinophils-Neutrophils-Mast-CD14-CD4-Basophils-CD19-0.326
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-middle0.0795
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
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
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-mixed0.0917
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-Chondrocyte0.0441
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-thymus0.12
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
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-small0.297
C282-acute-B-tonsil-CD19-submaxillary-lymph-throat0
C283-tenocyte-Chondrocyte-mesenchymal-Macrophage-pleomorphic-Synoviocyte-cholangiocellular0
C284-parietal-occipital-medial-temporal-olfactory-locus-hippocampus0
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
C289-chorionic-skeletal-heart-Mast-amniotic-granulosa-left0
C29-mature-adipose-Adipocyte-breast-Lymphatic-vein-heart0
C290-Eosinophils-CD14-Basophils-Mast-CD4-CD8-immature-0.0333
C291-spinal-substantia-retina-medulla-tongue-skeletal-trachea0
C292-Mesenchymal-skin-umbilical-Adipocyte-mesenchymal-Chondrocyte-skeletal0
C293-CD14-CD14CD16-Basophils-Peripheral-immature-Eosinophils-CD340
C294-CD14-Macrophage-Monocytederived-CD14CD16-Neutrophils-Basophils-Peripheral0
C295-Fibroblast-Smooth-Myoblast-Chondrocyte-hepatic-Synoviocyte-Preadipocyte0.123
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-chorionic0.123
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-hepatic0.0442
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-Mesenchymal0.123
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: CNhs11338

Jaspar motifP-value
MA0002.20.678
MA0003.10.369
MA0004.10.289
MA0006.10.125
MA0007.10.276
MA0009.10.201
MA0014.10.772
MA0017.10.908
MA0018.20.142
MA0019.10.0847
MA0024.10.95
MA0025.10.902
MA0027.10.582
MA0028.10.0789
MA0029.10.56
MA0030.10.314
MA0031.10.226
MA0035.20.00652
MA0038.10.0273
MA0039.20.402
MA0040.10.861
MA0041.10.309
MA0042.10.91
MA0043.10.00391
MA0046.10.017
MA0047.20.0479
MA0048.10.646
MA0050.12.97617e-11
MA0051.12.52686e-7
MA0052.10.0723
MA0055.10.0618
MA0057.10.467
MA0058.10.238
MA0059.10.305
MA0060.11.75584e-6
MA0061.10.0164
MA0062.24.98348e-5
MA0065.20.0939
MA0066.10.324
MA0067.10.0224
MA0068.10.721
MA0069.10.458
MA0070.10.00576
MA0071.10.382
MA0072.10.969
MA0073.10.984
MA0074.10.98
MA0076.10.00432
MA0077.10.0203
MA0078.10.195
MA0079.20.433
MA0080.21.00079e-9
MA0081.10.0311
MA0083.10.828
MA0084.10.00757
MA0087.10.581
MA0088.10.556
MA0090.15.02192e-6
MA0091.10.641
MA0092.10.518
MA0093.10.268
MA0099.20.887
MA0100.10.103
MA0101.10.0214
MA0102.23.23088e-4
MA0103.10.00135
MA0104.20.896
MA0105.10.0854
MA0106.10.744
MA0107.10.00626
MA0108.25.96799e-8
MA0111.10.374
MA0112.20.48
MA0113.10.641
MA0114.10.109
MA0115.10.471
MA0116.10.185
MA0117.10.168
MA0119.10.448
MA0122.10.415
MA0124.10.297
MA0125.10.0883
MA0131.10.023
MA0135.10.0613
MA0136.17.28381e-10
MA0137.20.00935
MA0138.20.471
MA0139.10.883
MA0140.10.285
MA0141.10.27
MA0142.10.723
MA0143.10.674
MA0144.10.0615
MA0145.10.171
MA0146.10.178
MA0147.10.847
MA0148.10.124
MA0149.10.508
MA0150.18.1522e-4
MA0152.10.178
MA0153.10.0499
MA0154.10.674
MA0155.10.02
MA0156.14.23421e-9
MA0157.10.491
MA0159.10.27
MA0160.10.834
MA0162.10.161
MA0163.10.604
MA0164.10.821
MA0258.10.732
MA0259.10.159



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: CNhs11338

Novel motifP-value
10.216
100.0126
1000.9
1010.498
1020.746
1030.963
1040.886
1050.0435
1060.749
1070.0432
1080.691
1090.349
110.703
1100.361
1110.0946
1120.0732
1130.181
1140.521
1150.936
1160.284
1170.185
1180.58
1190.896
120.995
1200.684
1210.535
1220.123
1230.0257
1240.403
1250.0775
1260.158
1270.97
1280.638
1290.947
130.717
1300.152
1310.734
1320.0882
1330.969
1340.777
1350.162
1360.971
1370.157
1380.0127
1390.803
140.408
1400.819
1410.122
1420.656
1430.882
1440.87
1450.631
1460.332
1470.934
1480.18
1490.0788
150.788
1500.667
1510.557
1520.086
1530.415
1540.108
1550.295
1560.445
1570.0205
1580.0416
1590.56
160.454
1600.0771
1610.502
1620.0485
1630.737
1640.0626
1650.0454
1660.951
1670.315
1680.185
1690.296
170.511
180.544
190.821
20.414
200.438
210.379
220.253
230.817
240.88
250.44
260.327
270.391
280.476
290.44
30.318
300.0417
310.874
320.468
330.66
340.111
350.622
360.323
370.643
380.905
390.319
40.456
400.0308
410.119
420.343
430.8
440.67
450.114
460.881
470.83
480.579
490.771
50.435
500.27
510.373
520.545
530.535
540.577
550.474
560.657
570.79
580.244
590.239
60.535
600.533
610.56
620.157
630.119
640.346
650.326
660.222
670.535
680.0658
690.0142
70.938
700.475
710.723
720.173
730.251
740.0896
750.422
760.00765
770.0464
780.322
790.784
80.281
800.246
810.356
820.736
830.503
840.527
850.971
860.564
870.445
880.271
890.336
90.502
900.0238
910.721
920.32
930.513
940.0761
950.812
960.665
970.719
980.95
990.0176



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: CNhs11338


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)
0000066 (epithelial cell)
0002371 (somatic cell)
0000325 (stuff accumulating cell)
0000147 (pigment cell)
0000255 (eukaryotic cell)
0000149 (visual pigment cell)
0002586 (retinal pigment epithelial cell)

UBERON: Anatomy
0000468 (multi-cellular organism)
0000966 (retina)
0000970 (eye)
0000019 (camera-type eye)
0000483 (epithelium)
0000033 (head)
0000479 (tissue)
0004121 (ectoderm-derived structure)
0000064 (organ part)
0010314 (structure with developmental contribution from neural crest)
0000047 (simple eye)
0000062 (organ)
0000475 (organism subdivision)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000063 (organ segment)
0004923 (organ component layer)
0001444 (subdivision of head)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0000119 (cell layer)
0005388 (photoreceptor array)
0000020 (sense organ)
0010371 (ecto-epithelium)
0007625 (pigment epithelium of eye)
0001781 (layer of retina)
0001032 (sensory system)
0010317 (germ layer / neural crest derived structure)
0001782 (pigmented layer of retina)
0004088 (ocular region)
0000153 (anterior region of body)
0007811 (craniocervical region)
0002104 (visual system)
0001802 (posterior segment of eyeball)
0004456 (entire sense organ system)
0001456 (face)
0010230 (eyeball of camera-type eye)

FF: FANTOM5
0000102 (sample by type)
0000210 (human sample)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000001 (sample)
0000158 (human retinal pigment epithelial cell sample)

Ancestor terms (development)<b>Summary:</b>Connected ontology terms with develops_from, derives_from or preceded_by relationship <br><b>Analyst:</b> Hideya Kawaji <br><br>link to source data<br>data
NA

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