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{{f5samples
{{f5samples
|DRA_sample_Accession=CAGE@SAMD00005130
|accession_numbers=CAGE;DRX008573;DRR009445;DRZ000870;DRZ002255;DRZ012220;DRZ013605
|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0001044,UBERON:0000033,UBERON:0001007,UBERON:0004121,UBERON:0004119,UBERON:0011216,UBERON:0000466,UBERON:0000062,UBERON:0004111,UBERON:0000475,UBERON:0000061,UBERON:0000465,UBERON:0000481,UBERON:0004921,UBERON:0000161,UBERON:0001444,UBERON:0002553,UBERON:0000477,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0003293,UBERON:0003294,UBERON:0002365,UBERON:0000464,UBERON:0002530,UBERON:0010047,UBERON:0003408,UBERON:0010317,UBERON:0001555,UBERON:0001004,UBERON:0000153,UBERON:0007811,UBERON:0000165,UBERON:0001041,UBERON:0000166,UBERON:0000167,UBERON:0002330
|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0001044,UBERON:0000033,UBERON:0001007,UBERON:0004121,UBERON:0004119,UBERON:0011216,UBERON:0000466,UBERON:0000062,UBERON:0004111,UBERON:0000475,UBERON:0000061,UBERON:0000465,UBERON:0000481,UBERON:0004921,UBERON:0000161,UBERON:0001444,UBERON:0002553,UBERON:0000477,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0003293,UBERON:0003294,UBERON:0002365,UBERON:0000464,UBERON:0002530,UBERON:0010047,UBERON:0003408,UBERON:0010317,UBERON:0001555,UBERON:0001004,UBERON:0000153,UBERON:0007811,UBERON:0000165,UBERON:0001041,UBERON:0000166,UBERON:0000167,UBERON:0002330
|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000548,CL:0000151,CL:0000066,CL:0002371,CL:0000150,CL:0000154,CL:0000255,CL:0000622,CL:0002076,CL:0002251,CL:0002623
|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000548,CL:0000151,CL:0000066,CL:0002371,CL:0000150,CL:0000154,CL:0000255,CL:0000622,CL:0002076,CL:0002251,CL:0002623
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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=chr6:1312325..1312340,+!p1@FOXQ1!1.90!126.40!FOXQ1;;chr5:134369879..134369898,-!p2@PITX1!1.73!52.22!PITX1;;chr6:10415276..10415341,-!p2@TFAP2A!1.70!59.26!TFAP2A;;chr5:134369905..134369972,-!p1@PITX1!1.67!68.38!PITX1;;chr3:189507432..189507459,+!p1@TP63!1.65!43.72!TP63;;chr1:209979467..209979494,-!p1@IRF6!1.61!44.55!IRF6;;chr12:54785054..54785072,-!p4@ZNF385A!1.59!43.10!ZNF385A;;chr13:73633131..73633149,+!p1@KLF5!1.58!374.44!KLF5;;chr5:2751762..2751784,-!p1@IRX2!1.58!37.09!IRX2;;chr12:54785074..54785122,-!p2@ZNF385A!1.56!53.46!ZNF385A;;chr11:34642612..34642646,+!p1@EHF!1.55!34.61!EHF;;chr6:10412600..10412637,-!p1@TFAP2A!1.53!54.50!TFAP2A;;chr15:83953397..83953425,-!p1@BNC1!1.51!35.64!BNC1;;chr6:10415484..10415508,-!p3@TFAP2A!1.41!24.45!TFAP2A;;chr11:113930425..113930471,+!p1@ZBTB16!1.39!33.36!ZBTB16;;chr2:122042770..122042785,-!p1@TFCP2L1!1.34!20.93!TFCP2L1;;chr19:46801639..46801699,+!p1@HIF3A!1.34!20.72!HIF3A;;chrX:2418949..2419024,-!p1@DHRSX,p1@ZBED1!1.30!18.86!ZBED1;;chr5:2751785..2751808,-!p2@IRX2!1.28!18.03!IRX2;;chr4:57547454..57547469,-!p1@HOPX!1.28!18.03!HOPX;;chr14:37131058..37131139,+!p1@PAX9!1.27!17.61!PAX9;;chr16:86600426..86600441,+!p1@FOXC2!1.21!37.51!FOXC2;;chr5:3595977..3595999,+!p1@IRX1!1.20!14.92!IRX1;;chr5:3595934..3595957,+!p2@IRX1!1.20!14.71!IRX1;;chr12:66218598..66218645,+!p2@HMGA2!1.18!64.44!HMGA2;;chr14:61116183..61116208,-!p1@SIX1!1.18!53.05!SIX1;;chr11:34645791..34645836,+!p3@EHF!1.16!13.47!EHF;;chr12:66218255..66218304,+!p3@HMGA2!1.13!33.78!HMGA2;;chr2:45236540..45236577,-!p1@SIX2!1.13!12.64!SIX2;;chr8:128748308..128748324,+!p2@MYC!1.12!335.07!MYC;;chr16:54320101..54320125,-!p4@IRX3!1.11!16.99!IRX3;;chr3:111314186..111314204,-!p1@ZBED2!1.09!11.19!ZBED2;;chr1:6479968..6479986,-!p1@HES2!1.09!11.19!HES2;;chr17:7492684..7492778,-!p2@SOX15!1.03!20.93!SOX15;;chr19:45908292..45908374,-!p1@PPP1R13L!1.02!84.54!PPP1R13L;;chr6:10412576..10412599,-!p5@TFAP2A!1.01!9.32!TFAP2A;;chr11:129245526..129245553,+!p1@BARX2!1.01!9.12!BARX2;;chr1:24645832..24645853,+!p1@GRHL3!1.01!9.12!GRHL3;;chr20:51588873..51588953,+!p1@TSHZ2!1.00!12.02!TSHZ2;;chr2:19558373..19558392,-!p1@OSR1!0.99!24.45!OSR1;;chr13:73636252..73636307,+!p2@KLF5!0.98!10.15!KLF5;;chr21:47063625..47063658,+!p1@PCBP3!0.94!35.02!PCBP3;;chr12:53625966..53626012,-!p2@RARG!0.94!20.93!RARG;;chr3:189507460..189507471,+!p3@TP63!0.94!7.67!TP63;;chr1:158979792..158979814,+!p2@IFI16!0.93!74.39!IFI16;;chr2:178128149..178128198,-!p2@NFE2L2!0.92!40.41!NFE2L2;;chr1:158979872..158979898,+!p3@IFI16!0.92!23.21!IFI16;;chr11:113930401..113930422,+!p3@ZBTB16!0.92!7.25!ZBTB16;;chr19:33793430..33793447,-!p1@CEBPA!0.91!31.08!CEBPA;;chr2:46524897..46524911,+!p2@EPAS1!0.91!20.72!EPAS1;;chr12:66218836..66218888,+!p1@HMGA2!0.90!68.38!HMGA2;;chr20:6748325..6748352,+!p1@BMP2!0.90!10.15!BMP2;;chr19:46800289..46800327,+!p2@HIF3A!0.89!6.84!HIF3A;;chr10:8096772..8096787,+!p2@GATA3!0.88!7.87!GATA3;;chr11:34663913..34663945,+!p6@EHF!0.88!6.63!EHF;;chr5:3595961..3595975,+!p3@IRX1!0.88!6.63!IRX1;;chr9:14314566..14314618,-!p1@NFIB!0.86!79.78!NFIB;;chr1:61548225..61548299,+!p1@NFIA!0.85!83.92!NFIA;;chr14:21566731..21566836,-!p1@ZNF219!0.85!69.42!ZNF219;;chr1:209979411..209979433,-!p2@IRF6!0.85!6.01!IRF6;;chr8:49833948..49833973,-!p2@SNAI2!0.83!39.58!SNAI2;;chr2:60780753..60780800,-!p1@BCL11A!0.83!30.05!BCL11A;;chr21:40177845..40177863,+!p1@ETS2!0.82!359.73!ETS2;;chr7:42276787..42276815,-!p1@GLI3!0.82!15.75!GLI3;;chr2:214015111..214015179,-!p1@IKZF2!0.82!10.36!IKZF2;;chr17:7493405..7493419,-!p1@SOX15!0.82!5.59!SOX15;;chr13:41240717..41240735,-!p2@FOXO1!0.81!39.79!FOXO1;;chr2:66662281..66662308,+!p1@MEIS1!0.81!20.31!MEIS1;;chr2:66662249..66662267,+!p2@MEIS1!0.80!21.76!MEIS1;;chr20:55204351..55204377,+!p1@TFAP2C!0.80!6.84!TFAP2C;;chr1:24646263..24646277,+!p4@GRHL3!0.79!5.18!GRHL3;;chr16:86600870..86600921,+!p2@FOXC2!0.78!4.97!FOXC2;;chr16:54320646..54320672,-!p2@IRX3!0.77!7.87!IRX3;;chr12:66218573..66218596,+!p7@HMGA2!0.77!7.67!HMGA2;;chr16:54320617..54320643,-!p3@IRX3!0.77!6.42!IRX3;;chr11:113930291..113930339,+!p2@ZBTB16!0.76!8.08!ZBTB16;;chr4:57522166..57522260,-!p2@HOPX!0.76!5.59!HOPX;;chr13:41240737..41240787,-!p1@FOXO1!0.75!60.92!FOXO1;;chr8:48650715..48650735,-!p1@CEBPD!0.74!645.06!CEBPD;;chr2:43453734..43453751,-!p1@ZFP36L2!0.74!533.58!ZFP36L2;;chr8:49833978..49833996,-!p1@SNAI2!0.74!102.78!SNAI2;;chr3:126076242..126076257,-!p1@KLF15!0.74!5.80!KLF15;;chr14:61116168..61116180,-!p2@SIX1!0.74!5.18!SIX1;;chr15:83953373..83953386,-!p2@BNC1!0.74!4.56!BNC1;;chrX:106960285..106960299,-!p1@TSC22D3!0.73!133.03!TSC22D3;;chr9:77112225..77112238,+!p2@RORB!0.73!4.35!RORB;;chr8:10588010..10588030,-!p1@SOX7!0.73!4.35!SOX7;;chr11:129245736..129245758,+!p2@BARX2!0.73!4.35!BARX2;;chr3:193853927..193853944,+!p1@HES1!0.72!157.48!HES1;;chr8:128750654..128750793,+!p3@MYC!0.72!18.86!MYC;;chr18:77155922..77155939,+!p1@NFATC1!0.72!12.64!NFATC1;;chr17:53342311..53342400,+!p1@HLF!0.72!4.97!HLF;;chr2:60780607..60780624,-!p2@BCL11A!0.71!13.88!BCL11A;;chr9:2158443..2158481,+!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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:0000151;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000154;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000223;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000622;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0002076;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0002251;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0002623;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0000161;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0000165;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0000166;;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:0001044;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0002365
|ffid_belonging_in_development=CL:0000223
|ffid_belonging_in_development=CL:0000223
|fonse_cell_line=
|fonse_cell_line=
Line 38: Line 42:
|fonse_treatment_closure=
|fonse_treatment_closure=
|has_quality=
|has_quality=
|hg19bam=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/salivary%2520acinar%2520cells%252c%2520donor1.CNhs12810.11771-123I7.hg19.nobarcode.bam
|hg19ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/salivary%2520acinar%2520cells%252c%2520donor1.CNhs12810.11771-123I7.hg19.ctss.bed.gz
|hg19fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/salivary%2520acinar%2520cells%252c%2520donor1.CNhs12810.11771-123I7.hg19.nobarcode.rdna.fa.gz
|hg38bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.hCAGE/salivary%2520acinar%2520cells%252c%2520donor1.CNhs12810.11771-123I7.hg38.nobarcode.bam
|hg38ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.hCAGE/salivary%2520acinar%2520cells%252c%2520donor1.CNhs12810.11771-123I7.hg38.nobarcode.ctss.bed.gz
|id=FF:11771-123I7
|id=FF:11771-123I7
|is_a=EFO:0002091;;FF:0000278
|is_a=EFO:0002091;;FF:0000278
|is_obsolete=
|is_obsolete=
|library_id=CNhs12810
|library_id_phase_based=2:CNhs12810
|microRNAs=
|microRNAs_nn=
|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/human#cage;sample;11771
|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/human#cage;sample;11771
|name=salivary acinar cells, donor1
|name=salivary acinar cells, donor1
|namespace=FANTOM5
|namespace=FANTOM5
Line 46: Line 61:
|profile_cagescan=,,,
|profile_cagescan=,,,
|profile_hcage=CNhs12810,LSID972,release012,COMPLETED
|profile_hcage=CNhs12810,LSID972,release012,COMPLETED
|profile_rnaseq=,,,
|profile_rnaseq=
|profile_srnaseq=,,,
|profile_srnaseq=,,,
|refex=http://refex.dbcls.jp/genelist.php?lang
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Line 85: Line 101:
|top_motifs=TBX4,5:2.19250302246;TP53:2.03714803387;NKX2-1,4:1.88521546401;VSX1,2:1.57680702708;ONECUT1,2:1.56099217888;PAX1,9:1.44774081427;PDX1:1.24293500446;POU6F1:1.20190471739;HIF1A:1.11255053903;BPTF:1.05618989269;ZBTB16:1.02440133979;HOX{A4,D4}:0.991352398254;TEF:0.972552367182;AIRE:0.911683383154;bHLH_family:0.794041574658;TBP:0.725740056948;CDC5L:0.6936602144;RXR{A,B,G}:0.653041862246;UFEwm:0.636273417855;CEBPA,B_DDIT3:0.631442357524;PPARG:0.623719882234;STAT5{A,B}:0.615421509551;AR:0.60942492646;FOXN1:0.584453834426;HMGA1,2:0.56134522721;PAX4:0.536299043721;TEAD1:0.518186051687;FOX{I1,J2}:0.516013407259;FOXM1:0.498459888831;ADNP_IRX_SIX_ZHX:0.473976115779;GATA4:0.472544783398;ZEB1:0.429528737172;SMAD1..7,9:0.42081869274;NR3C1:0.415517055826;ZBTB6:0.408628201216;SNAI1..3:0.407907046065;NR1H4:0.405927287483;CDX1,2,4:0.401395812257;POU1F1:0.397593733112;FOXO1,3,4:0.395451445887;TOPORS:0.385424425758;ZNF423:0.382746568991;SP1:0.37287120184;FOXQ1:0.3605267621;PITX1..3:0.354158762274;KLF4:0.349960983834;TFAP2{A,C}:0.343229913741;EGR1..3:0.327157439231;MYBL2:0.324558142942;ARID5B:0.312949958814;EVI1:0.311461940716;GTF2A1,2:0.280168887887;FOS_FOS{B,L1}_JUN{B,D}:0.26051814403;NKX6-1,2:0.239796227006;ALX4:0.23623589038;REST:0.222305196071;MAZ:0.218904810774;NR6A1:0.212483115057;NRF1:0.165082292439;SOX17:0.156753685477;ZNF143:0.12895245371;GFI1:0.12203328759;RFX2..5_RFXANK_RFXAP:0.118359720736;TLX1..3_NFIC{dimer}:0.110506687655;ELK1,4_GABP{A,B1}:0.101648751514;BACH2:0.0999791875617;PAX5:0.0945301528641;ZIC1..3:0.0878330627968;NKX2-3_NKX2-5:0.0845643941007;GFI1B:0.0784333606233;RREB1:0.0631671257441;TFCP2:0.0551363727788;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:0.0551292870245;PRDM1:0.0302438171875;TLX2:0.0268746396704;MED-1{core}:0.0226102391452;NFE2L1:0.020664737578;NKX2-2,8:0.00293343059238;DBP:-0.00760925228797;FOSL2:-0.00768105342428;PAX6:-0.0100896847397;MYOD1:-0.0257638772506;HIC1:-0.0301149900668;IRF7:-0.0337952093192;IKZF2:-0.0339721175069;YY1:-0.0368405979197;XCPE1{core}:-0.0412608632373;HLF:-0.0446679783492;MTF1:-0.0453749243041;TFDP1:-0.052346587704;NFIL3:-0.0637417633204;ZNF238:-0.0644353955048;NFE2:-0.0856750297666;GLI1..3:-0.0876203284839;GTF2I:-0.0898290419742;LMO2:-0.0928794469489;STAT1,3:-0.106722717004;HNF1A:-0.112344149778;RBPJ:-0.115539244568;BREu{core}:-0.119331970003;POU2F1..3:-0.124346032333;E2F1..5:-0.128338042768;ZFP161:-0.14325100736;IKZF1:-0.162532280011;HNF4A_NR2F1,2:-0.171987293324;ZNF148:-0.177779950305;FOXP3:-0.181562597294;RXR{A,B,G}_{NR1H2,PPAR}dimers:-0.182807059104;TAL1_TCF{3,4,12}:-0.18559025856;TFAP2B:-0.186649120071;SOX2:-0.194770087453;NHLH1,2:-0.196371484954;LHX3,4:-0.210707599463;HES1:-0.214008540575;MTE{core}:-0.22223626151;NFKB1_REL_RELA:-0.223280206213;AHR_ARNT_ARNT2:-0.227362696361;ALX1:-0.229538667676;ELF1,2,4:-0.234921130325;PATZ1:-0.248166311054;PAX2:-0.254525235489;CUX2:-0.266576881716;GZF1:-0.27771922391;T:-0.282042638947;ATF2:-0.282897485074;RFX1:-0.284142525284;HMX1:-0.296013588563;ESRRA:-0.30203438296;NFATC1..3:-0.304578347096;RXRA_VDR{dimer}:-0.314325667799;ZNF384:-0.321152431346;FOXP1:-0.327823705926;ESR1:-0.372250772654;MZF1:-0.372385812496;CREB1:-0.393093709477;MYFfamily:-0.39312561706;MAFB:-0.399609070477;LEF1_TCF7_TCF7L1,2:-0.404529959428;GATA6:-0.416281078054;ATF4:-0.421265414294;EN1,2:-0.422317850736;FOX{D1,D2}:-0.450866167458;NFIX:-0.466010085479;SREBF1,2:-0.470250155833;FOXL1:-0.496892480677;HOX{A5,B5}:-0.503122351019;HBP1_HMGB_SSRP1_UBTF:-0.514193915515;SPI1:-0.526193523491;HOX{A6,A7,B6,B7}:-0.52878777422;NFY{A,B,C}:-0.529907079253;TFAP4:-0.530558129507;FOXD3:-0.542130087186;EBF1:-0.546278177363;SPZ1:-0.552182044946;NR5A1,2:-0.557483202552;HSF1,2:-0.558757947705;ATF5_CREB3:-0.562008574697;MYB:-0.573414095392;RORA:-0.576821054009;SPIB:-0.599510864859;OCT4_SOX2{dimer}:-0.613655552707;ETS1,2:-0.617119748797;TGIF1:-0.622060071333;NFE2L2:-0.647786485786;MEF2{A,B,C,D}:-0.651293732496;FOX{F1,F2,J1}:-0.653036347049;NKX3-2:-0.655361559097;JUN:-0.66208294622;EP300:-0.667273213847;NANOG{mouse}:-0.675583530693;RUNX1..3:-0.676700310929;PAX8:-0.692552185604;NANOG:-0.705702945878;CRX:-0.712878962495;GCM1,2:-0.722531058732;SOX5:-0.73121977426;FOXA2:-0.734232582751;NKX3-1:-0.748518626852;IRF1,2:-0.751565358809;POU5F1:-0.781726451318;STAT2,4,6:-0.805879528914;SOX{8,9,10}:-0.808722256342;SRF:-0.820013449613;ATF6:-0.831583507667;POU3F1..4:-0.840096920849;PRRX1,2:-0.894905363435;DMAP1_NCOR{1,2}_SMARC:-0.930925963128;PAX3,7:-1.1443805155;PBX1:-1.30315310393;XBP1:-1.343827353;HAND1,2:-1.38552910928;HOXA9_MEIS1:-1.57515383711
|top_motifs=TBX4,5:2.19250302246;TP53:2.03714803387;NKX2-1,4:1.88521546401;VSX1,2:1.57680702708;ONECUT1,2:1.56099217888;PAX1,9:1.44774081427;PDX1:1.24293500446;POU6F1:1.20190471739;HIF1A:1.11255053903;BPTF:1.05618989269;ZBTB16:1.02440133979;HOX{A4,D4}:0.991352398254;TEF:0.972552367182;AIRE:0.911683383154;bHLH_family:0.794041574658;TBP:0.725740056948;CDC5L:0.6936602144;RXR{A,B,G}:0.653041862246;UFEwm:0.636273417855;CEBPA,B_DDIT3:0.631442357524;PPARG:0.623719882234;STAT5{A,B}:0.615421509551;AR:0.60942492646;FOXN1:0.584453834426;HMGA1,2:0.56134522721;PAX4:0.536299043721;TEAD1:0.518186051687;FOX{I1,J2}:0.516013407259;FOXM1:0.498459888831;ADNP_IRX_SIX_ZHX:0.473976115779;GATA4:0.472544783398;ZEB1:0.429528737172;SMAD1..7,9:0.42081869274;NR3C1:0.415517055826;ZBTB6:0.408628201216;SNAI1..3:0.407907046065;NR1H4:0.405927287483;CDX1,2,4:0.401395812257;POU1F1:0.397593733112;FOXO1,3,4:0.395451445887;TOPORS:0.385424425758;ZNF423:0.382746568991;SP1:0.37287120184;FOXQ1:0.3605267621;PITX1..3:0.354158762274;KLF4:0.349960983834;TFAP2{A,C}:0.343229913741;EGR1..3:0.327157439231;MYBL2:0.324558142942;ARID5B:0.312949958814;EVI1:0.311461940716;GTF2A1,2:0.280168887887;FOS_FOS{B,L1}_JUN{B,D}:0.26051814403;NKX6-1,2:0.239796227006;ALX4:0.23623589038;REST:0.222305196071;MAZ:0.218904810774;NR6A1:0.212483115057;NRF1:0.165082292439;SOX17:0.156753685477;ZNF143:0.12895245371;GFI1:0.12203328759;RFX2..5_RFXANK_RFXAP:0.118359720736;TLX1..3_NFIC{dimer}:0.110506687655;ELK1,4_GABP{A,B1}:0.101648751514;BACH2:0.0999791875617;PAX5:0.0945301528641;ZIC1..3:0.0878330627968;NKX2-3_NKX2-5:0.0845643941007;GFI1B:0.0784333606233;RREB1:0.0631671257441;TFCP2:0.0551363727788;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:0.0551292870245;PRDM1:0.0302438171875;TLX2:0.0268746396704;MED-1{core}:0.0226102391452;NFE2L1:0.020664737578;NKX2-2,8:0.00293343059238;DBP:-0.00760925228797;FOSL2:-0.00768105342428;PAX6:-0.0100896847397;MYOD1:-0.0257638772506;HIC1:-0.0301149900668;IRF7:-0.0337952093192;IKZF2:-0.0339721175069;YY1:-0.0368405979197;XCPE1{core}:-0.0412608632373;HLF:-0.0446679783492;MTF1:-0.0453749243041;TFDP1:-0.052346587704;NFIL3:-0.0637417633204;ZNF238:-0.0644353955048;NFE2:-0.0856750297666;GLI1..3:-0.0876203284839;GTF2I:-0.0898290419742;LMO2:-0.0928794469489;STAT1,3:-0.106722717004;HNF1A:-0.112344149778;RBPJ:-0.115539244568;BREu{core}:-0.119331970003;POU2F1..3:-0.124346032333;E2F1..5:-0.128338042768;ZFP161:-0.14325100736;IKZF1:-0.162532280011;HNF4A_NR2F1,2:-0.171987293324;ZNF148:-0.177779950305;FOXP3:-0.181562597294;RXR{A,B,G}_{NR1H2,PPAR}dimers:-0.182807059104;TAL1_TCF{3,4,12}:-0.18559025856;TFAP2B:-0.186649120071;SOX2:-0.194770087453;NHLH1,2:-0.196371484954;LHX3,4:-0.210707599463;HES1:-0.214008540575;MTE{core}:-0.22223626151;NFKB1_REL_RELA:-0.223280206213;AHR_ARNT_ARNT2:-0.227362696361;ALX1:-0.229538667676;ELF1,2,4:-0.234921130325;PATZ1:-0.248166311054;PAX2:-0.254525235489;CUX2:-0.266576881716;GZF1:-0.27771922391;T:-0.282042638947;ATF2:-0.282897485074;RFX1:-0.284142525284;HMX1:-0.296013588563;ESRRA:-0.30203438296;NFATC1..3:-0.304578347096;RXRA_VDR{dimer}:-0.314325667799;ZNF384:-0.321152431346;FOXP1:-0.327823705926;ESR1:-0.372250772654;MZF1:-0.372385812496;CREB1:-0.393093709477;MYFfamily:-0.39312561706;MAFB:-0.399609070477;LEF1_TCF7_TCF7L1,2:-0.404529959428;GATA6:-0.416281078054;ATF4:-0.421265414294;EN1,2:-0.422317850736;FOX{D1,D2}:-0.450866167458;NFIX:-0.466010085479;SREBF1,2:-0.470250155833;FOXL1:-0.496892480677;HOX{A5,B5}:-0.503122351019;HBP1_HMGB_SSRP1_UBTF:-0.514193915515;SPI1:-0.526193523491;HOX{A6,A7,B6,B7}:-0.52878777422;NFY{A,B,C}:-0.529907079253;TFAP4:-0.530558129507;FOXD3:-0.542130087186;EBF1:-0.546278177363;SPZ1:-0.552182044946;NR5A1,2:-0.557483202552;HSF1,2:-0.558757947705;ATF5_CREB3:-0.562008574697;MYB:-0.573414095392;RORA:-0.576821054009;SPIB:-0.599510864859;OCT4_SOX2{dimer}:-0.613655552707;ETS1,2:-0.617119748797;TGIF1:-0.622060071333;NFE2L2:-0.647786485786;MEF2{A,B,C,D}:-0.651293732496;FOX{F1,F2,J1}:-0.653036347049;NKX3-2:-0.655361559097;JUN:-0.66208294622;EP300:-0.667273213847;NANOG{mouse}:-0.675583530693;RUNX1..3:-0.676700310929;PAX8:-0.692552185604;NANOG:-0.705702945878;CRX:-0.712878962495;GCM1,2:-0.722531058732;SOX5:-0.73121977426;FOXA2:-0.734232582751;NKX3-1:-0.748518626852;IRF1,2:-0.751565358809;POU5F1:-0.781726451318;STAT2,4,6:-0.805879528914;SOX{8,9,10}:-0.808722256342;SRF:-0.820013449613;ATF6:-0.831583507667;POU3F1..4:-0.840096920849;PRRX1,2:-0.894905363435;DMAP1_NCOR{1,2}_SMARC:-0.930925963128;PAX3,7:-1.1443805155;PBX1:-1.30315310393;XBP1:-1.343827353;HAND1,2:-1.38552910928;HOXA9_MEIS1:-1.57515383711
|xref=
|xref=
|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_human;search_select_hide=table111:FF:11771-123I7;search_select_hide=table117:FF:11771-123I7
}}
}}

Latest revision as of 18:19, 4 June 2020

Name:salivary acinar cells, donor1
Species:Human (Homo sapiens)
Library ID:CNhs12810
Sample type:primary cells
Genomic View: UCSC
RefEX:Specific genes
FANTOM CAT:1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14
CAGEd-oPOSSUM:link
ZENBU report :link
Additional information
Sample information
strainNA
tissueparotid gland
dev stageNA
sexfemale
age40
cell typesalivary acinar cell
cell lineNA
companyNA
collaborationSwati Pradhan
External link for information[{{{sample_info_link}}} {{{sample_info_link}}}]
RNA information
lot numberNA
catalog numberNA
sample typetotal RNA
extraction protocol (Details)OP-RNA-extraction-totalRNA-TRIzol-ethanol-v1.0

CAGE Accession numbers
MethodSample accession id
CAGE  SAMD00005130
Library accession numbers

Library idMethodExp. accession idRun accession id
CNhs12810 CAGE DRX008573 DRR009445
Accession ID Hg19

Library idBAMCTSS
CNhs12810 DRZ000870 DRZ002255
Accession ID Hg38

Library idBAMCTSS
CNhs12810 DRZ012220 DRZ013605
Download raw sequence, BAM & CTSS
Hg19
FastaBAMCTSS
downloaddownloaddonwload
Hg38
BAMCTSS
downloaddonwload


Relative expression to median (log10)

Transcription factors with enriched expression in this sampleRanked list of transcription factor promoter expression in this sample relative to the median expression in the FANTOM5 collection is shown. Value is log10 transformed.



Co-expression clusters with enriched expression in this sampleRanked list of co-expression cluster expression in this sample relative to the median expression in the FANTOM5 collection is shown. Value is log10 transformed. <br>Analyst:NA <br><br>link to dataset.<br>data

Coexpression clusterscore
C0-CD14-Eosinophils-Neutrophils-Basophils-CD34-immature-Peripheral0
C1-testis-epididymis-embryonic-medulla-pituitary-trachea-caudate0
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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: CNhs12810

Jaspar motifP-value
MA0002.21.64253e-4
MA0003.10.0811
MA0004.10.852
MA0006.10.531
MA0007.10.213
MA0009.10.777
MA0014.10.527
MA0017.10.024
MA0018.29.72892e-6
MA0019.10.388
MA0024.10.659
MA0025.10.0343
MA0027.10.146
MA0028.10.387
MA0029.10.86
MA0030.10.127
MA0031.10.845
MA0035.20.0435
MA0038.10.0172
MA0039.20.309
MA0040.10.128
MA0041.10.938
MA0042.10.643
MA0043.10.105
MA0046.10.769
MA0047.20.22
MA0048.10.0263
MA0050.18.19472e-10
MA0051.18.37125e-7
MA0052.15.08083e-4
MA0055.10.00126
MA0057.10.474
MA0058.10.562
MA0059.10.781
MA0060.15.08254e-4
MA0061.10.00288
MA0062.20.0106
MA0065.20.185
MA0066.10.969
MA0067.10.241
MA0068.15.99929e-4
MA0069.10.439
MA0070.10.767
MA0071.10.0153
MA0072.10.27
MA0073.10.752
MA0074.10.37
MA0076.10.633
MA0077.10.82
MA0078.10.787
MA0079.20.365
MA0080.22.08669e-13
MA0081.10.00168
MA0083.10.0334
MA0084.10.791
MA0087.10.486
MA0088.10.808
MA0090.10.0122
MA0091.10.0967
MA0092.10.141
MA0093.10.913
MA0099.20.0572
MA0100.10.562
MA0101.10.0041
MA0102.20.398
MA0103.10.233
MA0104.20.712
MA0105.10.0185
MA0106.11.30538e-11
MA0107.10.0014
MA0108.20.651
MA0111.10.505
MA0112.20.0599
MA0113.10.0419
MA0114.10.199
MA0115.10.413
MA0116.10.174
MA0117.10.015
MA0119.10.197
MA0122.10.126
MA0124.10.781
MA0125.10.8
MA0131.10.293
MA0135.10.685
MA0136.17.28479e-10
MA0137.20.00695
MA0138.20.216
MA0139.10.0044
MA0140.10.0281
MA0141.10.354
MA0142.10.319
MA0143.10.383
MA0144.10.11
MA0145.10.697
MA0146.10.555
MA0147.10.461
MA0148.10.0207
MA0149.10.378
MA0150.10.0715
MA0152.10.916
MA0153.10.391
MA0154.10.00367
MA0155.10.0514
MA0156.12.07667e-8
MA0157.10.546
MA0159.10.08
MA0160.10.102
MA0162.10.366
MA0163.10.00273
MA0164.10.404
MA0258.10.0453
MA0259.10.333



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: CNhs12810

Novel motifP-value
10.755
100.368
1000.997
1010.315
1020.861
1030.649
1040.663
1050.894
1060.0834
1070.919
1080.926
1090.682
110.446
1100.746
1110.465
1120.92
1130.0107
1140.739
1150.938
1160.307
1170.723
1180.511
1190.667
120.0191
1200.713
1210.228
1220.165
1230.446
1240.00396
1250.707
1260.345
1270.693
1280.762
1290.814
130.0597
1300.248
1310.857
1320.1
1330.0783
1340.598
1350.128
1360.0525
1370.00234
1380.188
1390.758
140.449
1400.53
1410.58
1420.258
1430.053
1440.54
1450.773
1460.896
1470.27
1480.149
1490.384
150.296
1500.661
1510.595
1520.182
1530.356
1540.615
1550.975
1560.161
1570.985
1580.454
1590.063
160.651
1600.151
1610.938
1620.278
1630.571
1640.223
1650.912
1660.202
1670.314
1680.776
1690.645
170.95
180.484
190.0954
20.268
200.0441
210.152
220.841
230.1
240.0127
250.179
260.99
270.504
280.552
290.268
30.977
300.578
310.648
320.576
330.865
340.0656
350.0599
360.00578
370.956
380.933
390.908
40.0932
400.151
410.0914
420.465
430.288
440.865
450.404
460.397
470.29
480.833
490.0934
50.234
500.46
510.541
520.979
530.032
540.471
550.214
560.903
570.496
580.623
590.0222
60.806
600.277
610.174
620.219
630.54
640.236
650.528
660.453
670.352
680.989
690.687
70.314
700.446
710.741
720.611
730.0683
740.288
750.693
760.23
770.404
780.937
790.949
80.518
800.0163
810.459
820.344
830.238
840.0632
850.829
860.382
870.782
880.853
890.767
90.153
900.749
910.266
920.373
930.668
940.357
950.0566
960.308
970.871
980.362
990.629



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: CNhs12810


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)
0000151 (secretory cell)
0000066 (epithelial cell)
0002371 (somatic cell)
0000150 (glandular epithelial cell)
0000154 (protein secreting cell)
0000255 (eukaryotic cell)
0000622 (acinar cell)
0002076 (endo-epithelial cell)
0002251 (epithelial cell of alimentary canal)
0002623 (acinar cell of salivary gland)

UBERON: Anatomy
0000468 (multi-cellular organism)
0001044 (saliva-secreting gland)
0000033 (head)
0001007 (digestive system)
0004121 (ectoderm-derived structure)
0004119 (endoderm-derived structure)
0011216 (organ system subdivision)
0000466 (immaterial anatomical entity)
0000062 (organ)
0004111 (anatomical conduit)
0000475 (organism subdivision)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000481 (multi-tissue structure)
0004921 (subdivision of digestive tract)
0000161 (orifice)
0001444 (subdivision of head)
0002553 (anatomical cavity)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0003293 (gland of oral region)
0003294 (gland of foregut)
0002365 (exocrine gland)
0000464 (anatomical space)
0002530 (gland)
0010047 (oral gland)
0003408 (gland of gut)
0010317 (germ layer / neural crest derived structure)
0001555 (digestive tract)
0001004 (respiratory system)
0000153 (anterior region of body)
0007811 (craniocervical region)
0000165 (mouth)
0001041 (foregut)
0000166 (oral opening)
0000167 (oral cavity)
0002330 (exocrine system)

FF: FANTOM5
0000102 (sample by type)
0000210 (human sample)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000001 (sample)
0000278 (human salivary acinar cell sample)

Ancestor terms (development)<b>Summary:</b>Connected ontology terms with develops_from, derives_from or preceded_by relationship <br><b>Analyst:</b> Hideya Kawaji <br><br>link to source data<br>data
CL:0000223 (endodermal cell)

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