FF:11222-116B7: Difference between revisions
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{{f5samples | {{f5samples | ||
|DRA_sample_Accession=CAGE@SAMD00004784 | |||
|HumanCAGEScanFiles=NCig10039;http://fantom.gsc.riken.jp/5/datafiles/phase2.3/basic/human.primary_cell.CAGEScan/Fibroblast%2520-%2520Gingival%252c%2520donor4%2520%28GFH2%29.NCig10039.11222-116B7.hg19.GCTATA.3prime.fq.gz;http://fantom.gsc.riken.jp/5/datafiles/phase2.3/basic/human.primary_cell.CAGEScan/Fibroblast%2520-%2520Gingival%252c%2520donor4%2520%28GFH2%29.NCig10039.11222-116B7.hg19.GCTATA.5prime.fq.gz;http://fantom.gsc.riken.jp/5/datafiles/phase2.3/basic/human.primary_cell.CAGEScan/Fibroblast%2520-%2520Gingival%252c%2520donor4%2520%28GFH2%29.NCig10039.11222-116B7.hg19.GCTATA.bam;http://fantom.gsc.riken.jp/5/datafiles/phase2.3/basic/human.primary_cell.CAGEScan/Fibroblast%2520-%2520Gingival%252c%2520donor4%2520%28GFH2%29.NCig10039.11222-116B7.hg19.GCTATA.pairs.bed.gz | |||
|accession_numbers=CAGE;DRX008263;DRR009135;DRZ000560;DRZ001945;DRZ011910;DRZ013295 | |||
|ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0002384,UBERON:0000033,UBERON:0000479,UBERON:0001007,UBERON:0000344,UBERON:0004121,UBERON:0000064,UBERON:0004119,UBERON:0000062,UBERON:0004111,UBERON:0000475,UBERON:0000061,UBERON:0000465,UBERON:0000481,UBERON:0004923,UBERON:0000161,UBERON:0001444,UBERON:0000477,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0003729,UBERON:0010317,UBERON:0001555,UBERON:0001828,UBERON:0001004,UBERON:0000153,UBERON:0007811,UBERON:0000165,UBERON:0000166 | |ancestors_in_anatomy_facet=UBERON:0000468,UBERON:0002384,UBERON:0000033,UBERON:0000479,UBERON:0001007,UBERON:0000344,UBERON:0004121,UBERON:0000064,UBERON:0004119,UBERON:0000062,UBERON:0004111,UBERON:0000475,UBERON:0000061,UBERON:0000465,UBERON:0000481,UBERON:0004923,UBERON:0000161,UBERON:0001444,UBERON:0000477,UBERON:0000467,UBERON:0001062,UBERON:0000480,UBERON:0003729,UBERON:0010317,UBERON:0001555,UBERON:0001828,UBERON:0001004,UBERON:0000153,UBERON:0007811,UBERON:0000165,UBERON:0000166 | ||
|ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000548,CL:0002320,CL:0002371,CL:0000255,CL:0000057,CL:0002552 | |ancestors_in_cell_lineage_facet=CL:0000000,CL:0000003,CL:0000548,CL:0002320,CL:0002371,CL:0000255,CL:0000057,CL:0002552 | ||
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|created_by= | |created_by= | ||
|creation_date= | |creation_date= | ||
|datafreeze_phase= | |data_phase=2 | ||
|datafreeze_phase=2 | |||
|def= | |def= | ||
|expression_enrichment_score=chr1:170632285..170632309,+!p1@PRRX1!2.30!224.53!PRRX1;;chr10:28034739..28034756,-!p1@MKX!2.13!134.24!MKX;;chr16:86544113..86544145,+!p1@FOXF1!2.10!154.44!FOXF1;;chr1:170633348..170633399,+!p2@PRRX1!1.87!97.42!PRRX1;;chr15:57511609..57511651,+!p2@TCF12!1.84!112.86!TCF12;;chr6:1389789..1389821,+!p1@FOXF2!1.84!91.48!FOXF2;;chr20:55204351..55204377,+!p1@TFAP2C!1.81!79.60!TFAP2C;;chr6:134210243..134210257,+!p1@TCF21!1.81!64.15!TCF21;;chr9:132427972..132428056,+!p1@PRRX2!1.76!73.66!PRRX2;;chr9:132427883..132427951,+!p2@PRRX2!1.75!54.65!PRRX2;;chr6:45296048..45296082,+!p1@RUNX2!1.68!53.46!RUNX2;;chr2:239756671..239756732,+!p1@TWIST2!1.65!135.43!TWIST2;;chr4:4861385..4861398,+!p1@MSX1!1.64!121.18!MSX1;;chr11:46299199..46299233,+!p1@CREB3L1!1.63!204.34!CREB3L1;;chr17:59477233..59477263,+!p1@TBX2!1.52!97.42!TBX2;;chr14:37131058..37131139,+!p1@PAX9!1.50!30.89!PAX9;;chr12:115122318..115122331,-!p2@TBX3!1.47!28.51!TBX3;;chr1:170633262..170633285,+!p3@PRRX1!1.43!29.70!PRRX1;;chr3:141105705..141105770,+!p4@ZBTB38!1.42!30.89!ZBTB38;;chr9:96717629..96717644,-!p1@BARX1!1.41!24.95!BARX1;;chr14:61116183..61116208,-!p1@SIX1!1.40!89.10!SIX1;;chr2:239756739..239756755,+!p2@TWIST2!1.40!40.39!TWIST2;;chr7:44143925..44143970,+!p1@AEBP1!1.38!491.83!AEBP1;;chr7:19157248..19157268,-!p1@TWIST1!1.36!59.40!TWIST1;;chr1:170632477..170632506,+!p6@PRRX1!1.35!21.38!PRRX1;;chr8:72756667..72756736,-!p2@MSC!1.34!32.08!MSC;;chr7:44143978..44143989,+!p2@AEBP1!1.33!36.83!AEBP1;;chr1:170632250..170632277,+!p7@PRRX1!1.33!20.20!PRRX1;;chr14:24837368..24837401,+!p1@NFATC4!1.32!46.33!NFATC4;;chr1:75600067..75600094,+!p2@LHX8!1.30!19.01!LHX8;;chr6:1389824..1389840,+!p3@FOXF2!1.25!16.63!FOXF2;;chr11:46299539..46299620,+!p2@CREB3L1!1.22!26.14!CREB3L1;;chr11:65687222..65687240,+!p7@DRAP1!1.22!20.20!DRAP1;;chr11:34642612..34642646,+!p1@EHF!1.22!15.44!EHF;;chr2:19558373..19558392,-!p1@OSR1!1.20!40.39!OSR1;;chr2:200322654..200322707,-!p2@SATB2!1.20!21.38!SATB2;;chr8:72756063..72756125,-!p1@MSC!1.18!28.51!MSC;;chr2:191878812..191878823,-!p2@STAT1!1.18!17.82!STAT1;;chr10:28035133..28035148,-!p3@MKX!1.18!14.26!MKX;;chr5:72744594..72744609,-!p1@FOXD1!1.16!61.78!FOXD1;;chr10:31607702..31607755,+!p3@ZEB1!1.16!15.44!ZEB1;;chr14:37126765..37126799,+!p2@PAX9!1.15!13.07!PAX9;;chr6:1389989..1390019,+!p2@FOXF2!1.15!13.07!FOXF2;;chr17:59477197..59477212,+!p2@TBX2!1.13!21.38!TBX2;;chr1:170632439..170632465,+!p11@PRRX1!1.11!11.88!PRRX1;;chr1:170633058..170633084,+!p5@PRRX1!1.11!11.88!PRRX1;;chrY:2803415..2803468,+!p1@ZFY!1.11!11.88!ZFY;;chr18:22932080..22932170,-!p1@ZNF521!1.10!49.90!ZNF521;;chr2:200323414..200323455,-!p1@SATB2!1.10!24.95!SATB2;;chr3:141121847..141121868,+!p5@ZBTB38!1.10!17.82!ZBTB38;;chr17:59477275..59477286,+!p3@TBX2!1.10!15.44!TBX2;;chr8:72756637..72756664,-!p3@MSC!1.10!13.07!MSC;;chr15:42749722..42749739,-!p2@ZFP106!1.09!20.20!ZFP106;;chr11:65687362..65687436,+!p3@DRAP1!1.08!51.08!DRAP1;;chr1:170632959..170632987,+!p4@PRRX1!1.07!11.88!PRRX1;;chr1:170632762..170632786,+!p13@PRRX1!1.07!10.69!PRRX1;;chr10:28035112..28035130,-!p5@MKX!1.07!10.69!MKX;;chr2:46524537..46524553,+!p1@EPAS1!1.05!1021.68!EPAS1;;chr11:65687158..65687216,+!p4@DRAP1!1.03!55.84!DRAP1;;chr7:19157043..19157088,-!p2@TWIST1!1.03!24.95!TWIST1;;chr11:65686802..65686818,+!p6@DRAP1!1.02!16.63!DRAP1;;chr6:36355513..36355578,-!p2@ETV7!1.02!11.88!ETV7;;chr12:115121770..115121781,-!p4@TBX3!1.02!9.50!TBX3;;chr2:95963052..95963106,+!p1@KCNIP3!1.02!9.50!KCNIP3;;chr1:170632115..170632136,+!p9@PRRX1!1.02!9.50!PRRX1;;chr1:170632325..170632339,+!p24@PRRX1!1.02!9.50!PRRX1;;chr8:99956662..99956684,+!p1@OSR2!1.01!14.26!OSR2;;chr2:191878874..191878938,-!p1@STAT1!1.00!494.21!STAT1;;chr6:1312325..1312340,+!p1@FOXQ1!0.98!14.26!FOXQ1;;chr1:170632137..170632172,+!p10@PRRX1!0.97!8.32!PRRX1;;chr20:55205825..55205847,+!p2@TFAP2C!0.97!8.32!TFAP2C;;chr10:28035155..28035166,-!p8@MKX!0.97!8.32!MKX;;chr12:115121802..115121814,-!p5@TBX3!0.97!8.32!TBX3;;chr3:141121820..141121838,+!p9@ZBTB38!0.97!8.32!ZBTB38;;chr12:53614115..53614154,-!p1@RARG!0.96!45.14!RARG;;chr8:72756267..72756296,-!p4@MSC!0.95!11.88!MSC;;chr5:72744445..72744466,-!p2@FOXD1!0.94!13.07!FOXD1;;chr1:25256756..25256774,-!p1@RUNX3!0.92!14.26!RUNX3;;chr7:44143738..44143760,+!p4@AEBP1!0.92!8.32!AEBP1;;chr7:96654133..96654150,-!p1@DLX5!0.91!7.13!DLX5;;chr1:170632310..170632321,+!p15@PRRX1!0.91!7.13!PRRX1;;chr1:25291475..25291511,-!p2@RUNX3!0.91!7.13!RUNX3;;chr9:96717678..96717689,-!p2@BARX1!0.91!7.13!BARX1;;chr2:172949484..172949522,+!p1@DLX1!0.91!7.13!DLX1;;chr12:56753869..56753930,-!p1@STAT2!0.90!324.32!STAT2;;chr11:64764435..64764449,-!p1@BATF2!0.89!9.50!BATF2;;chr12:115121962..115121987,-!p1@TBX3!0.88!58.21!TBX3;;chr11:65667884..65667895,-!p2@FOSL1!0.87!26.14!FOSL1;;chr8:60031682..60031710,-!p2@TOX!0.87!10.69!TOX;;chr7:44143997..44144008,+!p3@AEBP1!0.87!8.32!AEBP1;;chr13:45151259..45151326,-!p2@TSC22D1!0.86!39.20!TSC22D1;;chr8:72756213..72756243,-!p5@MSC!0.86!8.32!MSC;;chr2:46612334..46612349,+!p6@EPAS1!0.86!8.32!EPAS1;;chr9:77112244..77112262,+!p1@RORB!0.86!7.13!RORB;;chrY:21906594..21906622,-!p1@KDM5D!0.84!5.94!KDM5D;;chr8:72756380..72756427,-!p8@MSC!0.84!5.94!MSC;;chr12:115122303..115122314,-!p6@TBX3!0.84!5.94!TBX3;;chr12:85673977..85674015,+!p1@ALX1!0.84!5.94!ALX1;;chr1:170633294..170633303,+!p23@PRRX1!0.84!5.94!PRRX1;;chr22:41763452..41763466,+!p2@TEF!0.84!5.94!TEF;;chr2:102091566..102091581,-!p1@RFX8!0.84!5.94!RFX8;;chr15:57511589..57511608,+!p4@TCF12!0.84!5.94!TCF12;;chr3:157823517..157823562,-!p1@SHOX2!0.81!5.94!SHOX2;;chr11:12696071..12696086,+!p3@TEAD1!0.80!7.13!TEAD1;;chr17:17726907..17726958,-!p2@SREBF1!0.79!34.45!SREBF1;;chr11:65686732..65686756,+!p2@DRAP1!0.79!23.76!DRAP1;;chr6:126240380..126240430,+!p2@NCOA7!0.79!14.26!NCOA7;;chr11:615570..615721,-!p2@IRF7!0.79!10.69!IRF7;;chr19:31840130..31840160,-!p2@TSHZ3!0.79!8.32!TSHZ3;;chr2:46602901..46602926,+!p7@EPAS1!0.79!7.13!EPAS1;;chr9:102584159..102584174,+!p2@NR4A3!0.78!9.50!NR4A3;;chr2:145277640..145277771,-!p1@ZEB2!0.77!72.47!ZEB2;;chr7:14029283..14029311,-!p1@ETV1!0.77!28.51!ETV1;;chr5:321810..321877,+!p1@AHRR!0.77!16.63!AHRR;;chr12:115122005..115122016,-!p3@TBX3!0.77!5.94!TBX3;;chr12:66218598..66218645,+!p2@HMGA2!0.76!23.76!HMGA2;;chr5:174151553..174151610,+!p1@MSX2!0.76!8.32!MSX2;;chr5:134369879..134369898,-!p2@PITX1!0.76!4.75!PITX1;;chr6:28321971..28321995,-!p1@ZNF323!0.76!4.75!ZNF323;;chr8:60031934..60031986,-!p6@TOX!0.76!4.75!TOX;;chr2:172950227..172950249,+!p2@DLX1!0.76!4.75!DLX1;;chr2:172967323..172967336,-!p4@DLX2!0.76!4.75!DLX2;;chr2:200322259..200322280,-!p5@SATB2!0.76!4.75!SATB2;;chr2:46612891..46612907,+!p10@EPAS1!0.76!4.75!EPAS1;;chr2:95963120..95963136,+!p2@KCNIP3!0.76!4.75!KCNIP3;;chr2:96012353..96012378,+!p4@KCNIP3!0.76!4.75!KCNIP3;;chr3:141121871..141121885,+!p13@ZBTB38!0.76!4.75!ZBTB38;;chr10:131762589..131762601,-!p3@EBF3!0.76!4.75!EBF3;;chr11:46299443..46299459,+!p4@CREB3L1!0.76!4.75!CREB3L1;;chr11:46333934..46333963,+!p5@CREB3L1!0.76!4.75!CREB3L1;;chr12:52448338..52448401,+!p7@NR4A1!0.76!4.75!NR4A1;;chr1:170632051..170632081,+!p16@PRRX1!0.76!4.75!PRRX1;;chr1:170632583..170632590,+!p26@PRRX1!0.76!4.75!PRRX1;;chr1:170632647..170632659,+!p17@PRRX1!0.76!4.75!PRRX1;;chr1:75602043..75602093,+!p1@LHX8!0.76!4.75!LHX8;;chr16:79633894..79633954,-!p3@MAF!0.75!9.50!MAF;;chr7:42276787..42276815,-!p1@GLI3!0.74!13.07!GLI3;;chr20:45142154..45142227,-!p1@ZNF334!0.74!9.50!ZNF334;;chr1:54204818..54204870,-!p@chr1:54204818..54204870,-!0.73!4.75!GLIS1;;chr11:65687243..65687276,+!p8@DRAP1!0.72!5.94!DRAP1;;chr1:47903709..47903764,+!p1@BC169308!0.71!4.75!FOXD2;;chr13:45151403..45151433,-!p5@TSC22D1!0.70!9.50!TSC22D1;;chr17:15689487..15689505,+!p@chr17:15689487..15689505,+!0.70!7.13!MEIS3P1;;chr20:48807615..48807644,+!p6@CEBPB!0.70!7.13!CEBPB;;chr2:46524865..46524870,+!p9@EPAS1!0.70!4.75!EPAS1;;chr2:145277882..145277967,-!p3@ZEB2!0.69!7.13!ZEB2;;chr11:615942..615957,-!p1@IRF7!0.68!41.58!IRF7;;chr3:71179699..71179744,-!p2@FOXP1!0.68!32.08!FOXP1;;chr2:157189180..157189290,-!p1@NR4A2!0.68!22.57!NR4A2;;chr1:158969752..158969780,+!p6@IFI16!0.68!7.13!IFI16;;chr14:24630902..24630948,+!p2@IRF9!0.68!4.75!IRF9;;chr5:92920256..92920282,+!p7@NR2F1!0.68!4.75!NR2F1;;chr5:134369905..134369972,-!p1@PITX1!0.67!5.94!PITX1;;chr7:14029312..14029325,-!p4@ETV1!0.67!4.75!ETV1;;chr10:104155659..104155676,+!p4@NFKB2!0.67!4.75!NFKB2;;chr14:21566731..21566836,-!p1@ZNF219!0.66!43.96!ZNF219;;chr22:38598086..38598105,+!p1@MAFF!0.66!43.96!MAFF;;chr11:65686952..65686975,+!p5@DRAP1!0.66!22.57!DRAP1;;chr5:92918894..92918912,+!p2@NR2F1!0.66!13.07!NR2F1;;chr18:56532100..56532130,+!p1@ZNF532!0.66!7.13!ZNF532;;chr15:67418177..67418204,+!p9@SMAD3!0.66!3.56!SMAD3;;chr10:31607811..31607837,+!p6@ZEB1!0.66!3.56!ZEB1;;chr12:115121587..115121597,-!p10@TBX3!0.66!3.56!TBX3;;chr12:115122262..115122271,-!p7@TBX3!0.66!3.56!TBX3;;chr12:53625846..53625861,-!p6@RARG!0.66!3.56!RARG;;chr1:158969727..158969749,+!p11@IFI16!0.66!3.56!IFI16;;chr1:170632028..170632043,+!p20@PRRX1!0.66!3.56!PRRX1;;chr1:170632723..170632739,+!p8@PRRX1!0.66!3.56!PRRX1;;chr1:170632907..170632916,+!p22@PRRX1!0.66!3.56!PRRX1;;chr1:170633194..170633205,+!p18@PRRX1!0.66!3.56!PRRX1;;chr20:55205791..55205817,+!p3@TFAP2C!0.66!3.56!TFAP2C;;chr5:174151612..174151633,+!p2@MSX2!0.66!3.56!MSX2;;chr7:150102756..150102772,+!p5@ZNF775!0.66!3.56!ZNF775;;chr8:116673894..116673913,-!p12@TRPS1!0.66!3.56!TRPS1;;chr8:93074848..93074871,-!p3@RUNX1T1!0.66!3.56!RUNX1T1;;chr22:41721853..41721874,+!p6@ZC3H7B!0.66!3.56!ZC3H7B;;chr2:172967353..172967365,-!p5@DLX2!0.66!3.56!DLX2;;chr3:157824001..157824078,-!p2@SHOX2!0.66!3.56!SHOX2;;chr4:26324474..26324501,+!p16@RBPJ!0.66!3.56!RBPJ;;chrX:66763815..66763854,+!p2@AR!0.65!4.75!AR;;chr9:102584262..102584276,+!p1@NR4A3!0.64!8.32!NR4A3;;chr19:17356189..17356221,-!p2@NR2F6!0.64!5.94!NR2F6;;chr2:192015750..192015793,-!p2@STAT4!0.64!4.75!STAT4;;chr14:75894714..75894733,+!p1@JDP2!0.63!109.30!JDP2;;chr3:178789522..178789564,-!p2@ZMAT3!0.63!28.51!ZMAT3;;chr2:113993052..113993097,-!p2@PAX8!0.63!8.32!PAX8;;chr12:57914286..57914304,-!p1@DDIT3!0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| |expression_enrichment_score=chr1:170632285..170632309,+!p1@PRRX1!2.30!224.53!PRRX1;;chr10:28034739..28034756,-!p1@MKX!2.13!134.24!MKX;;chr16:86544113..86544145,+!p1@FOXF1!2.10!154.44!FOXF1;;chr1:170633348..170633399,+!p2@PRRX1!1.87!97.42!PRRX1;;chr15:57511609..57511651,+!p2@TCF12!1.84!112.86!TCF12;;chr6:1389789..1389821,+!p1@FOXF2!1.84!91.48!FOXF2;;chr20:55204351..55204377,+!p1@TFAP2C!1.81!79.60!TFAP2C;;chr6:134210243..134210257,+!p1@TCF21!1.81!64.15!TCF21;;chr9:132427972..132428056,+!p1@PRRX2!1.76!73.66!PRRX2;;chr9:132427883..132427951,+!p2@PRRX2!1.75!54.65!PRRX2;;chr6:45296048..45296082,+!p1@RUNX2!1.68!53.46!RUNX2;;chr2:239756671..239756732,+!p1@TWIST2!1.65!135.43!TWIST2;;chr4:4861385..4861398,+!p1@MSX1!1.64!121.18!MSX1;;chr11:46299199..46299233,+!p1@CREB3L1!1.63!204.34!CREB3L1;;chr17:59477233..59477263,+!p1@TBX2!1.52!97.42!TBX2;;chr14:37131058..37131139,+!p1@PAX9!1.50!30.89!PAX9;;chr12:115122318..115122331,-!p2@TBX3!1.47!28.51!TBX3;;chr1:170633262..170633285,+!p3@PRRX1!1.43!29.70!PRRX1;;chr3:141105705..141105770,+!p4@ZBTB38!1.42!30.89!ZBTB38;;chr9:96717629..96717644,-!p1@BARX1!1.41!24.95!BARX1;;chr14:61116183..61116208,-!p1@SIX1!1.40!89.10!SIX1;;chr2:239756739..239756755,+!p2@TWIST2!1.40!40.39!TWIST2;;chr7:44143925..44143970,+!p1@AEBP1!1.38!491.83!AEBP1;;chr7:19157248..19157268,-!p1@TWIST1!1.36!59.40!TWIST1;;chr1:170632477..170632506,+!p6@PRRX1!1.35!21.38!PRRX1;;chr8:72756667..72756736,-!p2@MSC!1.34!32.08!MSC;;chr7:44143978..44143989,+!p2@AEBP1!1.33!36.83!AEBP1;;chr1:170632250..170632277,+!p7@PRRX1!1.33!20.20!PRRX1;;chr14:24837368..24837401,+!p1@NFATC4!1.32!46.33!NFATC4;;chr1:75600067..75600094,+!p2@LHX8!1.30!19.01!LHX8;;chr6:1389824..1389840,+!p3@FOXF2!1.25!16.63!FOXF2;;chr11:46299539..46299620,+!p2@CREB3L1!1.22!26.14!CREB3L1;;chr11:65687222..65687240,+!p7@DRAP1!1.22!20.20!DRAP1;;chr11:34642612..34642646,+!p1@EHF!1.22!15.44!EHF;;chr2:19558373..19558392,-!p1@OSR1!1.20!40.39!OSR1;;chr2:200322654..200322707,-!p2@SATB2!1.20!21.38!SATB2;;chr8:72756063..72756125,-!p1@MSC!1.18!28.51!MSC;;chr2:191878812..191878823,-!p2@STAT1!1.18!17.82!STAT1;;chr10:28035133..28035148,-!p3@MKX!1.18!14.26!MKX;;chr5:72744594..72744609,-!p1@FOXD1!1.16!61.78!FOXD1;;chr10:31607702..31607755,+!p3@ZEB1!1.16!15.44!ZEB1;;chr14:37126765..37126799,+!p2@PAX9!1.15!13.07!PAX9;;chr6:1389989..1390019,+!p2@FOXF2!1.15!13.07!FOXF2;;chr17:59477197..59477212,+!p2@TBX2!1.13!21.38!TBX2;;chr1:170632439..170632465,+!p11@PRRX1!1.11!11.88!PRRX1;;chr1:170633058..170633084,+!p5@PRRX1!1.11!11.88!PRRX1;;chrY:2803415..2803468,+!p1@ZFY!1.11!11.88!ZFY;;chr18:22932080..22932170,-!p1@ZNF521!1.10!49.90!ZNF521;;chr2:200323414..200323455,-!p1@SATB2!1.10!24.95!SATB2;;chr3:141121847..141121868,+!p5@ZBTB38!1.10!17.82!ZBTB38;;chr17:59477275..59477286,+!p3@TBX2!1.10!15.44!TBX2;;chr8:72756637..72756664,-!p3@MSC!1.10!13.07!MSC;;chr15:42749722..42749739,-!p2@ZFP106!1.09!20.20!ZFP106;;chr11:65687362..65687436,+!p3@DRAP1!1.08!51.08!DRAP1;;chr1:170632959..170632987,+!p4@PRRX1!1.07!11.88!PRRX1;;chr1:170632762..170632786,+!p13@PRRX1!1.07!10.69!PRRX1;;chr10:28035112..28035130,-!p5@MKX!1.07!10.69!MKX;;chr2:46524537..46524553,+!p1@EPAS1!1.05!1021.68!EPAS1;;chr11:65687158..65687216,+!p4@DRAP1!1.03!55.84!DRAP1;;chr7:19157043..19157088,-!p2@TWIST1!1.03!24.95!TWIST1;;chr11:65686802..65686818,+!p6@DRAP1!1.02!16.63!DRAP1;;chr6:36355513..36355578,-!p2@ETV7!1.02!11.88!ETV7;;chr12:115121770..115121781,-!p4@TBX3!1.02!9.50!TBX3;;chr2:95963052..95963106,+!p1@KCNIP3!1.02!9.50!KCNIP3;;chr1:170632115..170632136,+!p9@PRRX1!1.02!9.50!PRRX1;;chr1:170632325..170632339,+!p24@PRRX1!1.02!9.50!PRRX1;;chr8:99956662..99956684,+!p1@OSR2!1.01!14.26!OSR2;;chr2:191878874..191878938,-!p1@STAT1!1.00!494.21!STAT1;;chr6:1312325..1312340,+!p1@FOXQ1!0.98!14.26!FOXQ1;;chr1:170632137..170632172,+!p10@PRRX1!0.97!8.32!PRRX1;;chr20:55205825..55205847,+!p2@TFAP2C!0.97!8.32!TFAP2C;;chr10:28035155..28035166,-!p8@MKX!0.97!8.32!MKX;;chr12:115121802..115121814,-!p5@TBX3!0.97!8.32!TBX3;;chr3:141121820..141121838,+!p9@ZBTB38!0.97!8.32!ZBTB38;;chr12:53614115..53614154,-!p1@RARG!0.96!45.14!RARG;;chr8:72756267..72756296,-!p4@MSC!0.95!11.88!MSC;;chr5:72744445..72744466,-!p2@FOXD1!0.94!13.07!FOXD1;;chr1:25256756..25256774,-!p1@RUNX3!0.92!14.26!RUNX3;;chr7:44143738..44143760,+!p4@AEBP1!0.92!8.32!AEBP1;;chr7:96654133..96654150,-!p1@DLX5!0.91!7.13!DLX5;;chr1:170632310..170632321,+!p15@PRRX1!0.91!7.13!PRRX1;;chr1:25291475..25291511,-!p2@RUNX3!0.91!7.13!RUNX3;;chr9:96717678..96717689,-!p2@BARX1!0.91!7.13!BARX1;;chr2:172949484..172949522,+!p1@DLX1!0.91!7.13!DLX1;;chr12:56753869..56753930,-!p1@STAT2!0.90!324.32!STAT2;;chr11:64764435..64764449,-!p1@BATF2!0.89!9.50!BATF2;;chr12:115121962..115121987,-!p1@TBX3!0.88!58.21!TBX3;;chr11:65667884..65667895,-!p2@FOSL1!0.87!26.14!FOSL1;;chr8:60031682..60031710,-!p2@TOX!0.87!10.69!TOX;;chr7:44143997..44144008,+!p3@AEBP1!0.87!8.32!AEBP1;;chr13:45151259..45151326,-!p2@TSC22D1!0.86!39.20!TSC22D1;;chr8:72756213..72756243,-!p5@MSC!0.86!8.32!MSC;;chr2:46612334..46612349,+!p6@EPAS1!0.86!8.32!EPAS1;;chr9:77112244..77112262,+!p1@RORB!0.86!7.13!RORB;;chrY:21906594..21906622,-!p1@KDM5D!0.84!5.94!KDM5D;;chr8:72756380..72756427,-!p8@MSC!0.84!5.94!MSC;;chr12:115122303..115122314,-!p6@TBX3!0.84!5.94!TBX3;;chr12:85673977..85674015,+!p1@ALX1!0.84!5.94!ALX1;;chr1:170633294..170633303,+!p23@PRRX1!0.84!5.94!PRRX1;;chr22:41763452..41763466,+!p2@TEF!0.84!5.94!TEF;;chr2:102091566..102091581,-!p1@RFX8!0.84!5.94!RFX8;;chr15:57511589..57511608,+!p4@TCF12!0.84!5.94!TCF12;;chr3:157823517..157823562,-!p1@SHOX2!0.81!5.94!SHOX2;;chr11:12696071..12696086,+!p3@TEAD1!0.80!7.13!TEAD1;;chr17:17726907..17726958,-!p2@SREBF1!0.79!34.45!SREBF1;;chr11:65686732..65686756,+!p2@DRAP1!0.79!23.76!DRAP1;;chr6:126240380..126240430,+!p2@NCOA7!0.79!14.26!NCOA7;;chr11:615570..615721,-!p2@IRF7!0.79!10.69!IRF7;;chr19:31840130..31840160,-!p2@TSHZ3!0.79!8.32!TSHZ3;;chr2:46602901..46602926,+!p7@EPAS1!0.79!7.13!EPAS1;;chr9:102584159..102584174,+!p2@NR4A3!0.78!9.50!NR4A3;;chr2:145277640..145277771,-!p1@ZEB2!0.77!72.47!ZEB2;;chr7:14029283..14029311,-!p1@ETV1!0.77!28.51!ETV1;;chr5:321810..321877,+!p1@AHRR!0.77!16.63!AHRR;;chr12:115122005..115122016,-!p3@TBX3!0.77!5.94!TBX3;;chr12:66218598..66218645,+!p2@HMGA2!0.76!23.76!HMGA2;;chr5:174151553..174151610,+!p1@MSX2!0.76!8.32!MSX2;;chr5:134369879..134369898,-!p2@PITX1!0.76!4.75!PITX1;;chr6:28321971..28321995,-!p1@ZNF323!0.76!4.75!ZNF323;;chr8:60031934..60031986,-!p6@TOX!0.76!4.75!TOX;;chr2:172950227..172950249,+!p2@DLX1!0.76!4.75!DLX1;;chr2:172967323..172967336,-!p4@DLX2!0.76!4.75!DLX2;;chr2:200322259..200322280,-!p5@SATB2!0.76!4.75!SATB2;;chr2:46612891..46612907,+!p10@EPAS1!0.76!4.75!EPAS1;;chr2:95963120..95963136,+!p2@KCNIP3!0.76!4.75!KCNIP3;;chr2:96012353..96012378,+!p4@KCNIP3!0.76!4.75!KCNIP3;;chr3:141121871..141121885,+!p13@ZBTB38!0.76!4.75!ZBTB38;;chr10:131762589..131762601,-!p3@EBF3!0.76!4.75!EBF3;;chr11:46299443..46299459,+!p4@CREB3L1!0.76!4.75!CREB3L1;;chr11:46333934..46333963,+!p5@CREB3L1!0.76!4.75!CREB3L1;;chr12:52448338..52448401,+!p7@NR4A1!0.76!4.75!NR4A1;;chr1:170632051..170632081,+!p16@PRRX1!0.76!4.75!PRRX1;;chr1:170632583..170632590,+!p26@PRRX1!0.76!4.75!PRRX1;;chr1:170632647..170632659,+!p17@PRRX1!0.76!4.75!PRRX1;;chr1:75602043..75602093,+!p1@LHX8!0.76!4.75!LHX8;;chr16:79633894..79633954,-!p3@MAF!0.75!9.50!MAF;;chr7:42276787..42276815,-!p1@GLI3!0.74!13.07!GLI3;;chr20:45142154..45142227,-!p1@ZNF334!0.74!9.50!ZNF334;;chr1:54204818..54204870,-!p@chr1:54204818..54204870,-!0.73!4.75!GLIS1;;chr11:65687243..65687276,+!p8@DRAP1!0.72!5.94!DRAP1;;chr1:47903709..47903764,+!p1@BC169308!0.71!4.75!FOXD2;;chr13:45151403..45151433,-!p5@TSC22D1!0.70!9.50!TSC22D1;;chr17:15689487..15689505,+!p@chr17:15689487..15689505,+!0.70!7.13!MEIS3P1;;chr20:48807615..48807644,+!p6@CEBPB!0.70!7.13!CEBPB;;chr2:46524865..46524870,+!p9@EPAS1!0.70!4.75!EPAS1;;chr2:145277882..145277967,-!p3@ZEB2!0.69!7.13!ZEB2;;chr11:615942..615957,-!p1@IRF7!0.68!41.58!IRF7;;chr3:71179699..71179744,-!p2@FOXP1!0.68!32.08!FOXP1;;chr2:157189180..157189290,-!p1@NR4A2!0.68!22.57!NR4A2;;chr1:158969752..158969780,+!p6@IFI16!0.68!7.13!IFI16;;chr14:24630902..24630948,+!p2@IRF9!0.68!4.75!IRF9;;chr5:92920256..92920282,+!p7@NR2F1!0.68!4.75!NR2F1;;chr5:134369905..134369972,-!p1@PITX1!0.67!5.94!PITX1;;chr7:14029312..14029325,-!p4@ETV1!0.67!4.75!ETV1;;chr10:104155659..104155676,+!p4@NFKB2!0.67!4.75!NFKB2;;chr14:21566731..21566836,-!p1@ZNF219!0.66!43.96!ZNF219;;chr22:38598086..38598105,+!p1@MAFF!0.66!43.96!MAFF;;chr11:65686952..65686975,+!p5@DRAP1!0.66!22.57!DRAP1;;chr5:92918894..92918912,+!p2@NR2F1!0.66!13.07!NR2F1;;chr18:56532100..56532130,+!p1@ZNF532!0.66!7.13!ZNF532;;chr15:67418177..67418204,+!p9@SMAD3!0.66!3.56!SMAD3;;chr10:31607811..31607837,+!p6@ZEB1!0.66!3.56!ZEB1;;chr12:115121587..115121597,-!p10@TBX3!0.66!3.56!TBX3;;chr12:115122262..115122271,-!p7@TBX3!0.66!3.56!TBX3;;chr12:53625846..53625861,-!p6@RARG!0.66!3.56!RARG;;chr1:158969727..158969749,+!p11@IFI16!0.66!3.56!IFI16;;chr1:170632028..170632043,+!p20@PRRX1!0.66!3.56!PRRX1;;chr1:170632723..170632739,+!p8@PRRX1!0.66!3.56!PRRX1;;chr1:170632907..170632916,+!p22@PRRX1!0.66!3.56!PRRX1;;chr1:170633194..170633205,+!p18@PRRX1!0.66!3.56!PRRX1;;chr20:55205791..55205817,+!p3@TFAP2C!0.66!3.56!TFAP2C;;chr5:174151612..174151633,+!p2@MSX2!0.66!3.56!MSX2;;chr7:150102756..150102772,+!p5@ZNF775!0.66!3.56!ZNF775;;chr8:116673894..116673913,-!p12@TRPS1!0.66!3.56!TRPS1;;chr8:93074848..93074871,-!p3@RUNX1T1!0.66!3.56!RUNX1T1;;chr22:41721853..41721874,+!p6@ZC3H7B!0.66!3.56!ZC3H7B;;chr2:172967353..172967365,-!p5@DLX2!0.66!3.56!DLX2;;chr3:157824001..157824078,-!p2@SHOX2!0.66!3.56!SHOX2;;chr4:26324474..26324501,+!p16@RBPJ!0.66!3.56!RBPJ;;chrX:66763815..66763854,+!p2@AR!0.65!4.75!AR;;chr9:102584262..102584276,+!p1@NR4A3!0.64!8.32!NR4A3;;chr19:17356189..17356221,-!p2@NR2F6!0.64!5.94!NR2F6;;chr2:192015750..192015793,-!p2@STAT4!0.64!4.75!STAT4;;chr14:75894714..75894733,+!p1@JDP2!0.63!109.30!JDP2;;chr3:178789522..178789564,-!p2@ZMAT3!0.63!28.51!ZMAT3;;chr2:113993052..113993097,-!p2@PAX8!0.63!8.32!PAX8;;chr12:57914286..57914304,-!p1@DDIT3!0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| ||
|fantom_cat=http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/CL:0000057;;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:0002552;;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:0000344;;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:0001828;;http://fantom.gsc.riken.jp/5/suppl/Hon_et_al_2016/vis/#/ontologies/UBERON:0003729 | |||
|ffid_belonging_in_development=CL:0000134 | |ffid_belonging_in_development=CL:0000134 | ||
|fonse_cell_line= | |fonse_cell_line= | ||
Line 38: | 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/Fibroblast%2520-%2520Gingival%252c%2520donor4%2520%2528GFH2%2529.CNhs10848.11222-116B7.hg19.nobarcode.bam | |||
|hg19ctss=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Fibroblast%2520-%2520Gingival%252c%2520donor4%2520%2528GFH2%2529.CNhs10848.11222-116B7.hg19.ctss.bed.gz | |||
|hg19fasta=http://fantom.gsc.riken.jp/5/datafiles/latest/basic/human.primary_cell.hCAGE/Fibroblast%2520-%2520Gingival%252c%2520donor4%2520%2528GFH2%2529.CNhs10848.11222-116B7.hg19.nobarcode.rdna.fa.gz | |||
|hg38bam=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.hCAGE/Fibroblast%2520-%2520Gingival%252c%2520donor4%2520%2528GFH2%2529.CNhs10848.11222-116B7.hg38.nobarcode.bam | |||
|hg38ctss=http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v2/basic/human.primary_cell.hCAGE/Fibroblast%2520-%2520Gingival%252c%2520donor4%2520%2528GFH2%2529.CNhs10848.11222-116B7.hg38.nobarcode.ctss.bed.gz | |||
|id=FF:11222-116B7 | |id=FF:11222-116B7 | ||
|is_a=EFO:0002091;;FF:0000063 | |is_a=EFO:0002091;;FF:0000063 | ||
|is_obsolete= | |is_obsolete= | ||
|library_id=CNhs10848 | |||
|library_id_phase_based=2:CNhs10848 | |||
|microRNAs= | |||
|microRNAs_nn= | |||
|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/human#cage;sample;11222 | |||
|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/human#cage;sample;11222 | |||
|name=Fibroblast - Gingival, donor4 (GFH2) | |name=Fibroblast - Gingival, donor4 (GFH2) | ||
|namespace=FANTOM5 | |namespace=FANTOM5 | ||
Line 46: | Line 62: | ||
|profile_cagescan=NCig10039,,, | |profile_cagescan=NCig10039,,, | ||
|profile_hcage=CNhs10848,LSID700,release009,COMPLETED | |profile_hcage=CNhs10848,LSID700,release009,COMPLETED | ||
|profile_rnaseq= | |profile_rnaseq= | ||
|profile_srnaseq=,,, | |profile_srnaseq=,,, | ||
|refex=http://refex.dbcls.jp/genelist.php?lang | |||
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Line 63: | Line 80: | ||
|rna_weight_ug=21.8482 | |rna_weight_ug=21.8482 | ||
|sample_age=22 | |sample_age=22 | ||
|sample_category=primary cells | |||
|sample_cell_catalog=N/A | |sample_cell_catalog=N/A | ||
|sample_cell_line= | |sample_cell_line= | ||
Line 84: | Line 102: | ||
|top_motifs=ZNF238:2.23120268032;ESR1:2.20077088531;TAL1_TCF{3,4,12}:1.56675570685;IRF1,2:1.55764858298;HES1:1.53086436786;NKX2-2,8:1.51169454215;SPZ1:1.4546573499;HMGA1,2:1.42690486448;GZF1:1.39426924362;NFIX:1.33181598779;IRF7:1.26132719643;TFAP4:1.21362263543;MYBL2:1.20292922238;TP53:1.19561515596;MAZ:1.17007001631;MAFB:1.15625226572;GLI1..3:1.15536010657;ALX4:1.14585102895;EBF1:1.14210214718;PAX3,7:1.12402212585;TFCP2:1.11585914126;FOXL1:1.09232357498;PATZ1:1.01225486177;LHX3,4:1.00516125503;TFDP1:0.925999130442;NFATC1..3:0.870330063134;KLF4:0.864116968888;TFAP2{A,C}:0.860593164822;FOXO1,3,4:0.859315713463;NKX2-3_NKX2-5:0.856336776221;PAX5:0.786140121167;SREBF1,2:0.771097844273;TEAD1:0.762373798208;PAX1,9:0.759092961888;NKX6-1,2:0.753632354159;TLX1..3_NFIC{dimer}:0.742238222229;HAND1,2:0.740717896137;NHLH1,2:0.733725647291;ZBTB6:0.731270530515;ATF6:0.68424070201;GTF2A1,2:0.673010829881;HMX1:0.668083540223;NKX3-1:0.58467357098;ZNF423:0.57928029673;YY1:0.573633888579;PRDM1:0.546878984576;UFEwm:0.535095721753;GTF2I:0.526342086275;DBP:0.507728701641;TBX4,5:0.487374690148;NFE2L2:0.477689525797;RXR{A,B,G}:0.459496917499;MTF1:0.457921871941;TFAP2B:0.452924964401;EVI1:0.438091549906;NANOG{mouse}:0.433672217137;SOX17:0.422413299598;PPARG:0.420712611352;MZF1:0.411426860741;GFI1:0.410523265967;HBP1_HMGB_SSRP1_UBTF:0.403884223195;PDX1:0.401264688145;NKX3-2:0.396817698209;HIC1:0.393523052041;MYB:0.346986605395;NR3C1:0.32210552749;FOXA2:0.319678017662;EGR1..3:0.304722166278;RREB1:0.297675719978;GATA4:0.296412383435;NR6A1:0.285267336103;LEF1_TCF7_TCF7L1,2:0.245267612557;CEBPA,B_DDIT3:0.244865294793;HSF1,2:0.241519440274;MYFfamily:0.23884093774;MTE{core}:0.238808610955;HOX{A6,A7,B6,B7}:0.227727747637;ZNF148:0.226146189303;SMAD1..7,9:0.223160230289;HLF:0.218584186911;NFIL3:0.195754977725;ADNP_IRX_SIX_ZHX:0.175986974389;GFI1B:0.175413733544;XBP1:0.169887086121;RORA:0.15737095577;SRF:0.153037498524;MED-1{core}:0.131403655653;TBP:0.124352369897;XCPE1{core}:0.0919756752386;PRRX1,2:0.0859007805813;REST:0.0829990758736;HOX{A4,D4}:0.0731624044184;FOX{I1,J2}:0.0695075634209;HNF4A_NR2F1,2:0.0569099822678;STAT2,4,6:0.0532205711126;DMAP1_NCOR{1,2}_SMARC:0.0528940515903;SP1:0.0421029767528;ATF5_CREB3:0.0411241292412;FOS_FOS{B,L1}_JUN{B,D}:0.0320037552997;HNF1A:0.015294463613;BACH2:0.0122783734455;BPTF:0.00968638788455;EN1,2:0.00836000687458;NFKB1_REL_RELA:-0.0162171359473;HOXA9_MEIS1:-0.0358795873106;bHLH_family:-0.0456628203499;RBPJ:-0.0477162844177;NFE2L1:-0.0685137745105;GCM1,2:-0.0717402087379;CDC5L:-0.0850294228453;RUNX1..3:-0.0856506157887;ZFP161:-0.0975428719195;ZIC1..3:-0.135078758678;NFE2:-0.143520935019;NR1H4:-0.149267345744;FOXD3:-0.150315430814;ZNF384:-0.161149226065;FOSL2:-0.179328657929;TEF:-0.196367759171;SOX5:-0.202410474046;NR5A1,2:-0.255283225172;FOX{F1,F2,J1}:-0.265490557175;MEF2{A,B,C,D}:-0.268964105722;TOPORS:-0.292483548729;ESRRA:-0.292688458173;RFX1:-0.294345300875;CREB1:-0.295631661257;ETS1,2:-0.299001753024;IKZF1:-0.312723591219;RFX2..5_RFXANK_RFXAP:-0.333351500525;CRX:-0.337298341993;LMO2:-0.345905817213;PAX2:-0.347170265259;AHR_ARNT_ARNT2:-0.351691455246;PBX1:-0.357521625493;FOX{D1,D2}:-0.379383617835;POU5F1:-0.403578112705;E2F1..5:-0.419102602187;POU3F1..4:-0.431264001178;PAX8:-0.441211414587;NKX2-1,4:-0.460118782008;STAT5{A,B}:-0.466390661207;ATF2:-0.475170967161;BREu{core}:-0.4758150264;HOX{A5,B5}:-0.482465466018;POU6F1:-0.482751562591;JUN:-0.498399240605;GATA6:-0.501318588002;RXRA_VDR{dimer}:-0.503440407186;ZNF143:-0.511898103673;PAX4:-0.512718187108;ATF4:-0.514111143328;ELK1,4_GABP{A,B1}:-0.521948221552;FOXP1:-0.522393898835;ELF1,2,4:-0.53362880579;T:-0.535182772973;SPIB:-0.535464271897;AIRE:-0.563030551545;SPI1:-0.565854765488;NANOG:-0.585692409558;NRF1:-0.591053543395;CDX1,2,4:-0.596137217563;TLX2:-0.624487809822;EP300:-0.638908471454;MYOD1:-0.658347748039;TGIF1:-0.686565811615;ARID5B:-0.692114434618;FOXM1:-0.700366572463;CUX2:-0.730759241364;STAT1,3:-0.733292097507;SOX2:-0.746397283275;SOX{8,9,10}:-0.787718740806;AR:-0.814727370356;HIF1A:-0.828882720117;RXR{A,B,G}_{NR1H2,PPAR}dimers:-0.849477369353;OCT4_SOX2{dimer}:-0.883446495889;NFY{A,B,C}:-0.908867358198;ZEB1:-0.920337121413;IKZF2:-0.938970953709;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:-0.943183092192;FOXQ1:-0.976862215079;POU2F1..3:-1.00874979323;FOXN1:-1.0186216736;ALX1:-1.02425803096;SNAI1..3:-1.03792710942;FOXP3:-1.04147257539;ONECUT1,2:-1.12173062473;PITX1..3:-1.12328545115;POU1F1:-1.13518109727;ZBTB16:-1.15656421556;PAX6:-1.21064069048;VSX1,2:-1.60207564264 | |top_motifs=ZNF238:2.23120268032;ESR1:2.20077088531;TAL1_TCF{3,4,12}:1.56675570685;IRF1,2:1.55764858298;HES1:1.53086436786;NKX2-2,8:1.51169454215;SPZ1:1.4546573499;HMGA1,2:1.42690486448;GZF1:1.39426924362;NFIX:1.33181598779;IRF7:1.26132719643;TFAP4:1.21362263543;MYBL2:1.20292922238;TP53:1.19561515596;MAZ:1.17007001631;MAFB:1.15625226572;GLI1..3:1.15536010657;ALX4:1.14585102895;EBF1:1.14210214718;PAX3,7:1.12402212585;TFCP2:1.11585914126;FOXL1:1.09232357498;PATZ1:1.01225486177;LHX3,4:1.00516125503;TFDP1:0.925999130442;NFATC1..3:0.870330063134;KLF4:0.864116968888;TFAP2{A,C}:0.860593164822;FOXO1,3,4:0.859315713463;NKX2-3_NKX2-5:0.856336776221;PAX5:0.786140121167;SREBF1,2:0.771097844273;TEAD1:0.762373798208;PAX1,9:0.759092961888;NKX6-1,2:0.753632354159;TLX1..3_NFIC{dimer}:0.742238222229;HAND1,2:0.740717896137;NHLH1,2:0.733725647291;ZBTB6:0.731270530515;ATF6:0.68424070201;GTF2A1,2:0.673010829881;HMX1:0.668083540223;NKX3-1:0.58467357098;ZNF423:0.57928029673;YY1:0.573633888579;PRDM1:0.546878984576;UFEwm:0.535095721753;GTF2I:0.526342086275;DBP:0.507728701641;TBX4,5:0.487374690148;NFE2L2:0.477689525797;RXR{A,B,G}:0.459496917499;MTF1:0.457921871941;TFAP2B:0.452924964401;EVI1:0.438091549906;NANOG{mouse}:0.433672217137;SOX17:0.422413299598;PPARG:0.420712611352;MZF1:0.411426860741;GFI1:0.410523265967;HBP1_HMGB_SSRP1_UBTF:0.403884223195;PDX1:0.401264688145;NKX3-2:0.396817698209;HIC1:0.393523052041;MYB:0.346986605395;NR3C1:0.32210552749;FOXA2:0.319678017662;EGR1..3:0.304722166278;RREB1:0.297675719978;GATA4:0.296412383435;NR6A1:0.285267336103;LEF1_TCF7_TCF7L1,2:0.245267612557;CEBPA,B_DDIT3:0.244865294793;HSF1,2:0.241519440274;MYFfamily:0.23884093774;MTE{core}:0.238808610955;HOX{A6,A7,B6,B7}:0.227727747637;ZNF148:0.226146189303;SMAD1..7,9:0.223160230289;HLF:0.218584186911;NFIL3:0.195754977725;ADNP_IRX_SIX_ZHX:0.175986974389;GFI1B:0.175413733544;XBP1:0.169887086121;RORA:0.15737095577;SRF:0.153037498524;MED-1{core}:0.131403655653;TBP:0.124352369897;XCPE1{core}:0.0919756752386;PRRX1,2:0.0859007805813;REST:0.0829990758736;HOX{A4,D4}:0.0731624044184;FOX{I1,J2}:0.0695075634209;HNF4A_NR2F1,2:0.0569099822678;STAT2,4,6:0.0532205711126;DMAP1_NCOR{1,2}_SMARC:0.0528940515903;SP1:0.0421029767528;ATF5_CREB3:0.0411241292412;FOS_FOS{B,L1}_JUN{B,D}:0.0320037552997;HNF1A:0.015294463613;BACH2:0.0122783734455;BPTF:0.00968638788455;EN1,2:0.00836000687458;NFKB1_REL_RELA:-0.0162171359473;HOXA9_MEIS1:-0.0358795873106;bHLH_family:-0.0456628203499;RBPJ:-0.0477162844177;NFE2L1:-0.0685137745105;GCM1,2:-0.0717402087379;CDC5L:-0.0850294228453;RUNX1..3:-0.0856506157887;ZFP161:-0.0975428719195;ZIC1..3:-0.135078758678;NFE2:-0.143520935019;NR1H4:-0.149267345744;FOXD3:-0.150315430814;ZNF384:-0.161149226065;FOSL2:-0.179328657929;TEF:-0.196367759171;SOX5:-0.202410474046;NR5A1,2:-0.255283225172;FOX{F1,F2,J1}:-0.265490557175;MEF2{A,B,C,D}:-0.268964105722;TOPORS:-0.292483548729;ESRRA:-0.292688458173;RFX1:-0.294345300875;CREB1:-0.295631661257;ETS1,2:-0.299001753024;IKZF1:-0.312723591219;RFX2..5_RFXANK_RFXAP:-0.333351500525;CRX:-0.337298341993;LMO2:-0.345905817213;PAX2:-0.347170265259;AHR_ARNT_ARNT2:-0.351691455246;PBX1:-0.357521625493;FOX{D1,D2}:-0.379383617835;POU5F1:-0.403578112705;E2F1..5:-0.419102602187;POU3F1..4:-0.431264001178;PAX8:-0.441211414587;NKX2-1,4:-0.460118782008;STAT5{A,B}:-0.466390661207;ATF2:-0.475170967161;BREu{core}:-0.4758150264;HOX{A5,B5}:-0.482465466018;POU6F1:-0.482751562591;JUN:-0.498399240605;GATA6:-0.501318588002;RXRA_VDR{dimer}:-0.503440407186;ZNF143:-0.511898103673;PAX4:-0.512718187108;ATF4:-0.514111143328;ELK1,4_GABP{A,B1}:-0.521948221552;FOXP1:-0.522393898835;ELF1,2,4:-0.53362880579;T:-0.535182772973;SPIB:-0.535464271897;AIRE:-0.563030551545;SPI1:-0.565854765488;NANOG:-0.585692409558;NRF1:-0.591053543395;CDX1,2,4:-0.596137217563;TLX2:-0.624487809822;EP300:-0.638908471454;MYOD1:-0.658347748039;TGIF1:-0.686565811615;ARID5B:-0.692114434618;FOXM1:-0.700366572463;CUX2:-0.730759241364;STAT1,3:-0.733292097507;SOX2:-0.746397283275;SOX{8,9,10}:-0.787718740806;AR:-0.814727370356;HIF1A:-0.828882720117;RXR{A,B,G}_{NR1H2,PPAR}dimers:-0.849477369353;OCT4_SOX2{dimer}:-0.883446495889;NFY{A,B,C}:-0.908867358198;ZEB1:-0.920337121413;IKZF2:-0.938970953709;ARNT_ARNT2_BHLHB2_MAX_MYC_USF1:-0.943183092192;FOXQ1:-0.976862215079;POU2F1..3:-1.00874979323;FOXN1:-1.0186216736;ALX1:-1.02425803096;SNAI1..3:-1.03792710942;FOXP3:-1.04147257539;ONECUT1,2:-1.12173062473;PITX1..3:-1.12328545115;POU1F1:-1.13518109727;ZBTB16:-1.15656421556;PAX6:-1.21064069048;VSX1,2:-1.60207564264 | ||
|xref= | |xref= | ||
|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_human;search_select_hide=table111:FF:11222-116B7;search_select_hide=table117:FF:11222-116B7 | |||
}} | }} |
Latest revision as of 16:25, 3 June 2020
Name: | Fibroblast - Gingival, donor4 (GFH2) |
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Species: | Human (Homo sapiens) |
Library ID: | CNhs10848 |
Sample type: | primary cells |
Genomic View: | UCSC |
RefEX: | Specific genes |
FANTOM CAT: | 1, 2, 3, 4, 5, 6, 7, 8, 9, 10 |
CAGEd-oPOSSUM: | link |
ZENBU report : | link |
Additional information | ||||||||||||||||||||||||||||
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Sample information
RNA information
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CAGE Accession numbers | ||||||||||||||||||||||||||||||||||||||||||||||
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Download raw sequence, BAM & CTSS | ||||||||||||||
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HumanCAGEScan Download raw sequence, BAM & CTSS | ||||||||||||||||||
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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
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: CNhs10848
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: CNhs10848
Novel motif | Logo | P-value |
---|---|---|
1 | 1 | 0.32 |
10 | 10 | 0.456 |
100 | 100 | 0.598 |
101 | 101 | 0.725 |
102 | 102 | 0.0385 |
103 | 103 | 0.58 |
104 | 104 | 0.221 |
105 | 105 | 0.638 |
106 | 106 | 0.16 |
107 | 107 | 0.046 |
108 | 108 | 0.535 |
109 | 109 | 0.992 |
11 | 11 | 0.963 |
110 | 110 | 0.649 |
111 | 111 | 0.0493 |
112 | 112 | 0.445 |
113 | 113 | 0.887 |
114 | 114 | 0.389 |
115 | 115 | 0.363 |
116 | 116 | 0.293 |
117 | 117 | 0.508 |
118 | 118 | 0.222 |
119 | 119 | 0.665 |
12 | 12 | 0.0102 |
120 | 120 | 0.35 |
121 | 121 | 0.264 |
122 | 122 | 0.0262 |
123 | 123 | 0.00442 |
124 | 124 | 0.286 |
125 | 125 | 0.641 |
126 | 126 | 0.54 |
127 | 127 | 0.439 |
128 | 128 | 0.0756 |
129 | 129 | 0.246 |
13 | 13 | 0.0248 |
130 | 130 | 0.281 |
131 | 131 | 0.569 |
132 | 132 | 0.197 |
133 | 133 | 0.171 |
134 | 134 | 0.0229 |
135 | 135 | 0.786 |
136 | 136 | 0.69 |
137 | 137 | 0.355 |
138 | 138 | 0.58 |
139 | 139 | 0.19 |
14 | 14 | 0.464 |
140 | 140 | 0.0429 |
141 | 141 | 0.0102 |
142 | 142 | 0.889 |
143 | 143 | 0.846 |
144 | 144 | 0.119 |
145 | 145 | 0.986 |
146 | 146 | 0.3 |
147 | 147 | 0.277 |
148 | 148 | 0.834 |
149 | 149 | 0.531 |
15 | 15 | 0.688 |
150 | 150 | 0.223 |
151 | 151 | 0.859 |
152 | 152 | 0.0314 |
153 | 153 | 0.661 |
154 | 154 | 0.518 |
155 | 155 | 0.00461 |
156 | 156 | 0.445 |
157 | 157 | 0.781 |
158 | 158 | 0.0551 |
159 | 159 | 0.469 |
16 | 16 | 0.151 |
160 | 160 | 0.595 |
161 | 161 | 0.979 |
162 | 162 | 0.126 |
163 | 163 | 0.754 |
164 | 164 | 0.541 |
165 | 165 | 0.664 |
166 | 166 | 0.00686 |
167 | 167 | 0.231 |
168 | 168 | 0.828 |
169 | 169 | 0.0788 |
17 | 17 | 0.921 |
18 | 18 | 0.123 |
19 | 19 | 0.00476 |
2 | 2 | 0.0715 |
20 | 20 | 0.14 |
21 | 21 | 0.484 |
22 | 22 | 0.39 |
23 | 23 | 0.155 |
24 | 24 | 0.814 |
25 | 25 | 0.138 |
26 | 26 | 0.666 |
27 | 27 | 0.537 |
28 | 28 | 0.505 |
29 | 29 | 0.172 |
3 | 3 | 0.566 |
30 | 30 | 0.0881 |
31 | 31 | 0.289 |
32 | 32 | 1.64388e-12 |
33 | 33 | 0.652 |
34 | 34 | 0.336 |
35 | 35 | 0.783 |
36 | 36 | 0.0402 |
37 | 37 | 0.623 |
38 | 38 | 0.537 |
39 | 39 | 0.568 |
4 | 4 | 0.0779 |
40 | 40 | 0.08 |
41 | 41 | 0.612 |
42 | 42 | 0.706 |
43 | 43 | 0.564 |
44 | 44 | 0.998 |
45 | 45 | 0.323 |
46 | 46 | 0.506 |
47 | 47 | 0.435 |
48 | 48 | 0.531 |
49 | 49 | 0.937 |
5 | 5 | 0.486 |
50 | 50 | 0.514 |
51 | 51 | 0.696 |
52 | 52 | 0.353 |
53 | 53 | 0.556 |
54 | 54 | 0.526 |
55 | 55 | 0.121 |
56 | 56 | 0.72 |
57 | 57 | 0.907 |
58 | 58 | 0.302 |
59 | 59 | 0.048 |
6 | 6 | 0.6 |
60 | 60 | 0.879 |
61 | 61 | 0.724 |
62 | 62 | 0.832 |
63 | 63 | 0.453 |
64 | 64 | 0.693 |
65 | 65 | 0.167 |
66 | 66 | 0.618 |
67 | 67 | 0.819 |
68 | 68 | 0.865 |
69 | 69 | 0.394 |
7 | 7 | 0.0973 |
70 | 70 | 0.434 |
71 | 71 | 0.605 |
72 | 72 | 0.639 |
73 | 73 | 0.168 |
74 | 74 | 0.242 |
75 | 75 | 0.417 |
76 | 76 | 0.982 |
77 | 77 | 0.21 |
78 | 78 | 0.526 |
79 | 79 | 0.00423 |
8 | 8 | 0.566 |
80 | 80 | 0.534 |
81 | 81 | 0.53 |
82 | 82 | 0.379 |
83 | 83 | 0.254 |
84 | 84 | 0.631 |
85 | 85 | 0.469 |
86 | 86 | 0.956 |
87 | 87 | 0.458 |
88 | 88 | 0.238 |
89 | 89 | 0.253 |
9 | 9 | 0.354 |
90 | 90 | 0.854 |
91 | 91 | 0.323 |
92 | 92 | 0.286 |
93 | 93 | 0.63 |
94 | 94 | 0.352 |
95 | 95 | 0.552 |
96 | 96 | 0.655 |
97 | 97 | 0.289 |
98 | 98 | 0.292 |
99 | 99 | 2.62935e-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: CNhs10848
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)
0002320 (connective tissue cell)
0002371 (somatic cell)
0000255 (eukaryotic cell)
0000057 (fibroblast)
0002552 (fibroblast of gingiva)
UBERON: Anatomy
0000468 (multi-cellular organism)
0002384 (connective tissue)
0000033 (head)
0000479 (tissue)
0001007 (digestive system)
0000344 (mucosa)
0004121 (ectoderm-derived structure)
0000064 (organ part)
0004119 (endoderm-derived structure)
0000062 (organ)
0004111 (anatomical conduit)
0000475 (organism subdivision)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000481 (multi-tissue structure)
0004923 (organ component layer)
0000161 (orifice)
0001444 (subdivision of head)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0003729 (mouth mucosa)
0010317 (germ layer / neural crest derived structure)
0001555 (digestive tract)
0001828 (gingiva)
0001004 (respiratory system)
0000153 (anterior region of body)
0007811 (craniocervical region)
0000165 (mouth)
0000166 (oral opening)
FF: FANTOM5
0000102 (sample by type)
0000210 (human sample)
0000002 (in vivo cell sample)
0000101 (sample by species)
0000057 (fibroblast sample)
0000001 (sample)
0000063 (human fibroblast of gingiva sample)
Ancestor terms (development)<b>Summary:</b>Connected ontology terms with develops_from, derives_from or preceded_by relationship <br><b>Analyst:</b> Hideya Kawaji <br><br>link to source data<br>data
CL:0000134 (mesenchymal cell)