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Coexpression cluster:C126: Difference between revisions

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|id=C126
|id=C126
|ontology_enrichment_celltype=
|ontology_enrichment_celltype=
|ontology_enrichment_disease=DOID:0050687!1.81e-08!143;DOID:162!7.14e-07!235
|ontology_enrichment_disease=DOID:3119!1.43e-15!14
|ontology_enrichment_uberon=UBERON:0000073!7.81e-32!94;UBERON:0001016!7.81e-32!94;UBERON:0005743!3.02e-30!86;UBERON:0001017!1.01e-29!82;UBERON:0001049!1.62e-26!57;UBERON:0005068!1.62e-26!57;UBERON:0006241!1.62e-26!57;UBERON:0007135!1.62e-26!57;UBERON:0007023!1.23e-25!115;UBERON:0000955!6.31e-25!69;UBERON:0006238!6.31e-25!69;UBERON:0002780!2.45e-22!41;UBERON:0001890!2.45e-22!41;UBERON:0006240!2.45e-22!41;UBERON:0003080!8.51e-22!42;UBERON:0002616!1.16e-21!59;UBERON:0002020!1.69e-18!34;UBERON:0003528!1.69e-18!34;UBERON:0001893!2.04e-18!34;UBERON:0002346!6.41e-18!90;UBERON:0002791!8.61e-18!33;UBERON:0001869!1.74e-17!32;UBERON:0003075!2.82e-17!86;UBERON:0007284!2.82e-17!86;UBERON:0002619!2.21e-15!22;UBERON:0001950!3.86e-14!20;UBERON:0000956!9.92e-14!25;UBERON:0000203!9.92e-14!25;UBERON:0003056!4.50e-13!61;UBERON:0000924!4.64e-12!173;UBERON:0006601!4.64e-12!173;UBERON:0004121!1.83e-11!169;UBERON:0000153!5.53e-11!129;UBERON:0007811!5.53e-11!129;UBERON:0000033!1.19e-10!123;UBERON:0000025!2.17e-09!194
|ontology_enrichment_uberon=
|tf_chipseq_enrich=SUZ12#23512;9:3.19887963262104:0.00220640677423792:0.0127087423943655
|tf_chipseq_enrich=SUZ12#23512;9:3.19887963262104:0.00220640677423792:0.0127087423943655
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226194,0.838072,0.263517,0.0330862,0.000489471,0.679009,0.288266,0.0192558,0.000131904,0.587467,0.677315,0.0531077,0.000612777,0.289819,0.00459494,0.230207,0.119127,0.724036,0.382959,0.0120215,0.0105724,0.0227631,0.915422,0.0226337,0.901075,0.282214,0.0434896,0.0282867,0.412467,0.0234494,0.00986012,0.00431,0.561119,0.744342,0.999323,0.0701692,0.000698306,0.144349,0.0191647,0.00363865,5.67066e-08,0.886339,0.53034,0.0179692,0.0378522,0.396156,0.995718,0.0362438,0.0100421,0.374093,0.729493,0.90817,0.339585,0.110928,0.00739096,0.107459,0.153752,0.995799,0.181247,0.00890762,0.102637,0.946925,0.232901,0.00188365,0.632193,0.0328303,0.00350703,0.988803,0.999434,0.45665,0.125213,0.0364355,0.0334926,0.08095,0.184835,0.0687139,0.0251887,2.69209e-05,0.00753914,0.990096,9.56278e-05,0.00382185,0.0135955,0.041244,0.422932,0.21791,0.999996,0.000157313,0.66724,0.974684,0.341939,0.798601,0.247906,0.674999,0.413936,0.000671111,0.0936227,0.186199,0.299578,1,1,0.915817,7.45544e-05,0.451483,0.414577,0.78801,0.217406,0.200277,0.202833,0.0135679,0.0247324,0.469105,0.447051,0.429869,0.0145677,0.27092,0.502698,0.173658,0.123263,0.505294,0.0443495,0.0381651,0.269279,0.0548097,0.0076029,0.707419,0.315524,0.918769,0.514462,0.881477,0.718377,0.878341,0.0906617,0.534643,0.973931,0.65213,0.0882174,0.932207,0.230457,0.998338,0.180296,0.00103431,0.041705,0.788581,0.00369962,0.88007,0.351693,0.801077,0.0346044,0.000809897,0.54085,0.168226,0.797233,0.0880029,0.0191271,0.778675,0.432496,0.0131859,0.0600886,0.000479123,0.0225985,0.102467,0.0945736,0.0342224,0.418834,0.0297118,0.535512,0.584371,0.0131196,0.703807,0.0309193,0.652055,0.00576679,0.15877,0.0429493,0.907687,0.621804,0.684896,0.678033,0.966349,0.0707302,0.777446,0.220363,0.488584,0.786825,0.984881,0.996283,0.515202,0.961837,0.0728254,0.347222,0.081164,0.713342,0.982144,0.00808194,0.271266,0.466563,0.52104,0.0291136,0.504508,0.754895,0.00309827,0.976564,0.122119,0.536131,0.565869,0.0351082,0.746105,0.843269,0.718321,0.527087,0.631002,0.349265,0.814226,0.413904,0.375575,0.99916,0.999999,0.550661,0.478989,0.929953,0.441724,0.913394,0.594249,0.215587,0.684568,0.0134483,0.605291,0.0916794,0.977492,0.198171,0.819389,0.863378,0.829663,0.743234,0.988898,0.657724,0.861588,0.0337234,0.919288,0.847599,0.133516,0.948268,0.239187,0.102184,0.98822,0.0597545,0.936874,0.862845,0.994217,0.997183,0.987494,0.502515,0.899221,0.958161,0.907873,0.819902,0.379604,0.853006,0.744088,0.181849,0.0609473,0.367072,0.00130068,0.249092,0.916183,0.602567,0.257632,0.25881,0.168525,0.846136,0.413683,0.238311,0.851294,0.899289,0.521713,0.659023,0.224731,0.374028,0.363185,0.662621,0.994022,0.0292749,0.373669,1,0.726402,0.401238,0.552585,0.917115,0.325894,0.9812,0.222863,0.286587,0.0469492,0.172253,0.969057,0.0959893,0.16321,0.983297,0.0418728,0.115576,0.128105,0.208738,0.166573,0.445312,0.348436,0.646543,0.453349,0.389371,0.54718,0.0339666,0.998437,0.930493,0.540969,0.0380165,0.175407,0.00689881,0.976367,0.451432,0.0137414,0.821528,0.104777,0.72024,0.991422,0.760135,0.844656,0.00346685,0.587893,0.654918,0.0272239,0.0518951,0.416243,0.159203,0.541068,0.00257912,0.171604,0.0468245,0.150668,0.0300036,0.916708,0.388415,0.684289,0.534666,0.257267,0.00680797,0.00038287,0.763875,0.767812,0.0262792,0.461777,0.522307,0.0642004,0.851146,0.909862,0.05583,0.946252,0.397687,0.133189,0.528931,0.75146,0.289635,0.800487,0.402471,0.00032612,0.121616,0.465082,2.53328e-08,0.0453009,0.66314,0.840038,0.196697,0.764525,0.28624,0.0225017,0.352035,0.022865,0.932607,0.0264098,0.0306112,1.89569e-07,0.226358,0.789813,0.0532684,0.0190726,0.252898,0.30426,0.272778,0.166933,0.506433,0.282007,0.0383701,0.205685,0.314922,0.867769,0.229183,0.662487,0.282002,0.132981,0.646147,0.855646,0.576949,0.0562823,0.233088,0.76695,0.00432697,0.813737,0.460858,0.250983,0.0444489,0.171974,0.167689,0.550419,0.830631,0.919514,0.888221,0.795308,0.266548,0.231585,0.272567,0.0205149,0.36347,0.786229,0.550846,0.26029,0.699824,0.030244,0.327071,0.431181,0.255313,0.818137,0.82423,0.203216,0.0164754,0.244424,0.367502,0.0254604,0.0355141,0.110336,0.0675218,0.0299363,0.132475,0.125729,0.576184,0.0891223,0.578319,0.0515762,0.199651,0.132195,0.0111567,0.353485,0.0392174,0.175747,0.0290833,0.976226,0.52897,0.283035,0.131689,0.0280785,0.520753,0.279704,0.431496,0.347618,0.184237,0.228142,0.903938,0.273695,0.573022,0.269401,0.61133,0.261714,0.7322,0.779804,0.0164154,0.858302,0.122006,0.542613,0.19196,0.55886,0.966136,0.594894,0.126827,0.0502347,0.216736,0.378705,0.164372,0.599278,0.154285,0.108336,0.511647,0.00689787,0.907415,0.355843,0.631872,0.157894,0.525025,0.0103829,0.982094,0.580114,0.0120389,0.0349352,0.295096,0.13791,0.731071,0.949442,0.108571,0.23616,0.0409179,0.317183,0.0180549,0.0226517,0.00143664,0.129353,0.847245,0.0658751,0.0846869,0.613626,0.000770075,0.131401,0.487332,0.059549,0.0681947,0.0314982,0.0474189,0.016571,0.164121,0.865758,0.0132302,0.41659,0.49009,0.762015,0.230296,0.65379,0.107387,0.250577,0.262134,0.000870132,0.425613,0.0302452,0.0627741,0.516869,0.238594,0.404765,0.556763,0.188336,0.35797,0.0234858,0.028532,0.166831
}}
}}

Revision as of 11:03, 19 October 2012


Full id: C126_gastrointestinal_argyrophil_smallcell_merkel_bile_insula_brain



Phase1 CAGE Peaks

Hg19::chr10:102055183..102055184,-p@chr10:102055183..102055184
-
Hg19::chr10:102089952..102089973,-p2@PKD2L1
Hg19::chr10:102089977..102089990,-p1@PKD2L1
Hg19::chr10:102207688..102207707,+p@chr10:102207688..102207707
+
Hg19::chr10:16562454..16562494,+p@chr10:16562454..16562494
+
Hg19::chr10:16562497..16562508,+p@chr10:16562497..16562508
+
Hg19::chr10:16563117..16563150,-p5@C1QL3
Hg19::chr10:76801606..76801607,+p@chr10:76801606..76801607
+
Hg19::chr12:52055874..52055911,+p@chr12:52055874..52055911
+
Hg19::chr12:52081218..52081224,+p@chr12:52081218..52081224
+
Hg19::chr12:53596603..53596614,+p@chr12:53596603..53596614
+
Hg19::chr12:53596669..53596685,+p@chr12:53596669..53596685
+
Hg19::chr12:58838512..58838558,+p@chr12:58838512..58838558
+
Hg19::chr12:59095448..59095488,-p@chr12:59095448..59095488
-
Hg19::chr12:81771814..81771826,+p1@ENST00000546936
Hg19::chr12:81771827..81771839,+p2@ENST00000546936
Hg19::chr12:81776004..81776007,+p@chr12:81776004..81776007
+
Hg19::chr12:81813961..81813970,+p@chr12:81813961..81813970
+
Hg19::chr13:86221801..86221809,+p@chr13:86221801..86221809
+
Hg19::chr13:86221845..86221851,+p@chr13:86221845..86221851
+
Hg19::chr13:92981567..92981607,-p@chr13:92981567..92981607
-
Hg19::chr13:93057493..93057501,-p@chr13:93057493..93057501
-
Hg19::chr13:93057514..93057522,-p@chr13:93057514..93057522
-
Hg19::chr14:93383646..93383662,-p@chr14:93383646..93383662
-
Hg19::chr14:93397768..93397779,+p4@CHGA
Hg19::chr14:93398754..93398767,+p2@BC106953
Hg19::chr15:46428206..46428211,-p@chr15:46428206..46428211
-
Hg19::chr15:46545564..46545574,-p@chr15:46545564..46545574
-
Hg19::chr16:19663104..19663118,+p@chr16:19663104..19663118
+
Hg19::chr16:19663125..19663134,+p@chr16:19663125..19663134
+
Hg19::chr16:57640925..57640941,-p@chr16:57640925..57640941
-
Hg19::chr17:39565033..39565073,-p@chr17:39565033..39565073
-
Hg19::chr17:39565125..39565132,-p@chr17:39565125..39565132
-
Hg19::chr17:43053755..43053784,+p@chr17:43053755..43053784
+
Hg19::chr17:46303368..46303374,+p@chr17:46303368..46303374
+
Hg19::chr17:46303468..46303475,+p@chr17:46303468..46303475
+
Hg19::chr18:40194793..40194820,+p@chr18:40194793..40194820
+
Hg19::chr18:40194830..40194841,+p@chr18:40194830..40194841
+
Hg19::chr18:42380070..42380105,+p@chr18:42380070..42380105
+
Hg19::chr19:35940486..35940504,+p2@FFAR2
Hg19::chr19:36347787..36347850,+p1@KIRREL2
Hg19::chr19:42656683..42656689,+p1@ENST00000559786
p1@uc002ost.1
Hg19::chr19:45417574..45417589,+p1@APOC1
Hg19::chr1:31924907..31924925,-p@chr1:31924907..31924925
-
Hg19::chr1:31944306..31944336,-p@chr1:31944306..31944336
-
Hg19::chr1:31975103..31975114,+p@chr1:31975103..31975114
+
Hg19::chr1:32013141..32013146,+p27@TINAGL1
Hg19::chr1:95846540..95846548,-p2@ENST00000426881
p2@uc001drj.1
p2@uc001drk.1
Hg19::chr1:95846559..95846566,-p1@ENST00000426881
p1@uc001drj.1
p1@uc001drk.1
Hg19::chr1:98514995..98515010,-p9@MIR137HG
Hg19::chr1:98515017..98515065,-p3@MIR137HG
Hg19::chr20:22464921..22464928,-p@chr20:22464921..22464928
-
Hg19::chr20:44048281..44048327,-p@chr20:44048281..44048327
-
Hg19::chr20:44048705..44048721,+p19@PIGT
Hg19::chr20:47299359..47299377,-p@chr20:47299359..47299377
-
Hg19::chr21:45905448..45905455,+p1@ENST00000449713
Hg19::chr22:26299513..26299521,+p@chr22:26299513..26299521
+
Hg19::chr22:26299554..26299556,+p@chr22:26299554..26299556
+
Hg19::chr22:26299576..26299591,+p@chr22:26299576..26299591
+
Hg19::chr22:26299595..26299605,+p@chr22:26299595..26299605
+
Hg19::chr22:26299607..26299623,+p@chr22:26299607..26299623
+
Hg19::chr2:103969385..103969401,+p@chr2:103969385..103969401
+
Hg19::chr2:105030478..105030489,-p1@ENST00000449772
Hg19::chr2:128180446..128180455,+p8@PROC
Hg19::chr2:158443765..158443789,-p@chr2:158443765..158443789
-
Hg19::chr2:158443804..158443809,-p@chr2:158443804..158443809
-
Hg19::chr2:163194011..163194032,+p@chr2:163194011..163194032
+
Hg19::chr3:157823323..157823328,+p17@RSRC1
Hg19::chr3:157824156..157824164,-p4@SHOX2
Hg19::chr3:157824202..157824211,-p3@SHOX2
Hg19::chr3:157824322..157824334,-p7@SHOX2
Hg19::chr3:157824341..157824356,-p8@SHOX2
Hg19::chr3:157824437..157824459,-p5@SHOX2
Hg19::chr3:157825104..157825109,-p@chr3:157825104..157825109
-
Hg19::chr3:183947366..183947381,+p@chr3:183947366..183947381
+
Hg19::chr3:183947382..183947395,+p@chr3:183947382..183947395
+
Hg19::chr3:183948136..183948147,+p2@VWA5B2
Hg19::chr3:183948161..183948173,+p1@VWA5B2
Hg19::chr3:24206665..24206674,-p21@THRB
Hg19::chr3:55187389..55187391,-p@chr3:55187389..55187391
-
Hg19::chr3:55313580..55313599,-p@chr3:55313580..55313599
-
Hg19::chr3:59035577..59035598,-p3@C3orf67
Hg19::chr4:140762693..140762699,-p@chr4:140762693..140762699
-
Hg19::chr4:147558115..147558117,-p@chr4:147558115..147558117
-
Hg19::chr4:147558642..147558652,-p@chr4:147558642..147558652
-
Hg19::chr4:147559302..147559313,+p@chr4:147559302..147559313
+
Hg19::chr4:182186203..182186217,-p1@ENST00000512547
Hg19::chr4:90185426..90185448,+p@chr4:90185426..90185448
+
Hg19::chr5:115890554..115890570,-p11@SEMA6A
Hg19::chr5:140220769..140220797,+p1@PCDHA8
Hg19::chr5:147365729..147365732,-p@chr5:147365729..147365732
-
Hg19::chr5:35238029..35238052,-p@chr5:35238029..35238052
-
Hg19::chr5:7078237..7078241,-p@chr5:7078237..7078241
-
Hg19::chr5:85440032..85440036,-p@chr5:85440032..85440036
-
Hg19::chr5:85654384..85654387,-p@chr5:85654384..85654387
-
Hg19::chr5:85698439..85698441,-p@chr5:85698439..85698441
-
Hg19::chr5:85726548..85726552,-p@chr5:85726548..85726552
-
Hg19::chr5:85758220..85758224,-p@chr5:85758220..85758224
-
Hg19::chr5:85866603..85866622,-p@chr5:85866603..85866622
-
Hg19::chr6:102247584..102247620,+p@chr6:102247584..102247620
+
Hg19::chr6:2431114..2431122,+p@chr6:2431114..2431122
+
Hg19::chr6:25703371..25703392,-p@chr6:25703371..25703392
-
Hg19::chr6:25703430..25703438,-p@chr6:25703430..25703438
-
Hg19::chr6:52591707..52591712,+p@chr6:52591707..52591712
+
Hg19::chr7:10279440..10279456,-p@chr7:10279440..10279456
-
Hg19::chr7:10279467..10279477,-p@chr7:10279467..10279477
-
Hg19::chr7:119341438..119341443,-p@chr7:119341438..119341443
-
Hg19::chr7:119432715..119432719,-p@chr7:119432715..119432719
-
Hg19::chr7:119434164..119434168,-p@chr7:119434164..119434168
-
Hg19::chr7:141840592..141840632,+p@chr7:141840592..141840632
+
Hg19::chr7:19417679..19417693,+p@chr7:19417679..19417693
+
Hg19::chr7:19417700..19417718,+p@chr7:19417700..19417718
+
Hg19::chr7:25476780..25476790,+p@chr7:25476780..25476790
+
Hg19::chr7:25476805..25476814,+p@chr7:25476805..25476814
+
Hg19::chr7:27135418..27135419,-p6@HOXA1
Hg19::chr8:61496517..61496522,+p30@RAB2A
Hg19::chr8:61761056..61761069,+p@chr8:61761056..61761069
+
Hg19::chr8:61761479..61761510,+p@chr8:61761479..61761510
+
Hg19::chr8:83522938..83522947,-p@chr8:83522938..83522947
-
Hg19::chr8:83570383..83570385,-p@chr8:83570383..83570385
-
Hg19::chr8:83573739..83573746,-p@chr8:83573739..83573746
-
Hg19::chr8:83574464..83574473,-p@chr8:83574464..83574473
-
Hg19::chr8:83603164..83603178,-p@chr8:83603164..83603178
-
Hg19::chr8:83603186..83603195,-p@chr8:83603186..83603195
-
Hg19::chr9:104500249..104500268,-p1@AB385519
Hg19::chr9:104500922..104500940,-p1@GRIN3A
Hg19::chr9:105186923..105186932,+p@chr9:105186923..105186932
+
Hg19::chr9:105186934..105186953,+p@chr9:105186934..105186953
+
Hg19::chr9:105186978..105186981,+p@chr9:105186978..105186981
+
Hg19::chr9:109984515..109984523,+p@chr9:109984515..109984523
+
Hg19::chr9:136754716..136754724,-p@chr9:136754716..136754724
-
Hg19::chr9:18777363..18777375,-p@chr9:18777363..18777375
-
Hg19::chr9:18777378..18777385,-p@chr9:18777378..18777385
-
Hg19::chr9:74802300..74802309,+p@chr9:74802300..74802309
+
Hg19::chr9:9687992..9688006,+p@chr9:9687992..9688006
+
Hg19::chr9:9688031..9688053,+p@chr9:9688031..9688053
+
Hg19::chrX:122447934..122447944,-p@chrX:122447934..122447944
-
Hg19::chrX:122447968..122447983,-p@chrX:122447968..122447983
-
Hg19::chrX:33744981..33744990,-p@chrX:33744981..33744990
-
Hg19::chrX:33745016..33745027,-p@chrX:33745016..33745027
-
Hg19::chrX:83993981..83993987,+p@chrX:83993981..83993987
+


Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data

GO IDGO nameFDR corrected p-value
GO:0032501multicellular organismal process0.0323796067349582
GO:0007399nervous system development0.0323796067349582
GO:0005509calcium ion binding0.0323796067349582
GO:0003808protein C (activated) activity0.0323796067349582
GO:0042157lipoprotein metabolic process0.0389844058753471



Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br><br><br>disease_data<br>

Disease
Ontology termp-valuen
gastrointestinal system cancer1.43e-1514


Overrepresented TFBS (DNA) motifs on this co-expression cluster<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data

(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
SUZ12#2351293.198879632621040.002206406774237920.0127087423943655



Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data

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