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Coexpression cluster:C110: Difference between revisions

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|tf_chipseq_enrich=GATA1#2623;29:2.26005135730007:3.1367205728994e-05:0.000632668906745926!GATA2#2624;31:2.27064875712744:1.46045492790064e-05:0.00034712893084892!TAL1#6886;24:4.1198091968883:5.28616122714797e-09:4.23375300921861e-07
|tf_chipseq_enrich=GATA1#2623;29:2.26005135730007:3.1367205728994e-05:0.000632668906745926!GATA2#2624;31:2.27064875712744:1.46045492790064e-05:0.00034712893084892!TAL1#6886;24:4.1198091968883:5.28616122714797e-09:4.23375300921861e-07
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|tfbs_overrepresentation_for_novel_motifs=0.0119134,2.08121e-07,0.000384816,1.22201,1.47617,0.972731,0.00035506,2.55101,0.308594,4.97447e-05,0.00643746,0.217118,0.000103658,0.222872,0.461927,0.0494519,0.00800362,2.76553,5.13056e-07,0.0592708,1.53754,2.14966e-06,0.025574,2.65638,0.00458685,0.00781248,0.0260544,0.00938957,0.00842203,0.00779744,0.00412959,0.0114227,0.0093031,0.0100171,0.000343448,0.009586,1.87984e-08,0.00340615,1.28048,0.00227637,1.63613,0.000732326,0.11875,1.23418,3.69344e-07,0.00318934,0.0783329,0.0146078,0.647449,0.017646,0.0834656,0.0889884,0.0160921,0.0948825,1.7048,0.000300916,1.35357,0.00137371,0.00248557,0.00134724,0.0750966,0.000379113,0.0973192,0.0326256,0.00408274,3.42871,0.299212,1.45615,0.752804,0.190793,0.00211893,0.788474,7.66785e-09,1.21182,2.33136e-08,0.0195198,0.000463694,0.0278537,0.4844,0.535131,1.18754,0.205139,1.37948,1.19353,0.0426408,0,1.00906e-07,0.220082,0.0440237,0.367431,0.811337,0.0360469,1.57171,1.38175,0.0165985,0.730727,0.400894,0.0849206,0.0461157,0.0550944,1.92028,0.826099,0.0818703,1.30841,0.149183,0.00162245,0.037481,0.215961,0.0513597,4.73925e-05,0.0867658,0.0803817,0.0648547,0.00219119,0.10812,0.19901,3.65887e-08,0.0275423,0.159804,0.520308,0.443973,1.00838,0.746755,0.480683,0.489292,0.00499476,0.520593,0.0656622,0.241217,0.0320051,0.605605,0.512045,0.0733674,0.887197,0.136762,0.00229718,1.22386,0.171867,0.116434,0.75135,0.407681,1.64402,1.20192,0.0829842,0.0667067,0.0857455,0.413477,0.609419,0.716401,0.000132476,3.25901e-06,0,1.3604,0.00687117,0.0357557,1.13372,0.690968,0.631046,0.0905625,0.000141289,0.0994383,0.032157,0.13747,0.00243426,1.70435,1.37387,0.0595382,0.736473,0
}}
}}

Revision as of 13:27, 26 November 2012


Full id: C110_leukemia_chronic_Eosinophils_acute_Whole_CD34_Lymphatic



Phase1 CAGE Peaks

Hg19::chr10:82510229..82510235,+p@chr10:82510229..82510235
+
Hg19::chr11:109773840..109773869,-p@chr11:109773840..109773869
-
Hg19::chr11:59738815..59738853,+p@chr11:59738815..59738853
+
Hg19::chr11:59886734..59886742,-p@chr11:59886734..59886742
-
Hg19::chr11:59886775..59886783,-p@chr11:59886775..59886783
-
Hg19::chr11:91527340..91527347,-p@chr11:91527340..91527347
-
Hg19::chr11:91556061..91556064,-p@chr11:91556061..91556064
-
Hg19::chr11:92767986..92767992,+p@chr11:92767986..92767992
+
Hg19::chr12:43537916..43537937,+p@chr12:43537916..43537937
+
Hg19::chr12:62714046..62714064,+p@chr12:62714046..62714064
+
Hg19::chr12:62714083..62714089,+p@chr12:62714083..62714089
+
Hg19::chr12:73854074..73854088,+p@chr12:73854074..73854088
+
Hg19::chr12:89421452..89421478,-p@chr12:89421452..89421478
-
Hg19::chr12:89421491..89421499,-p@chr12:89421491..89421499
-
Hg19::chr12:89421523..89421536,-p@chr12:89421523..89421536
-
Hg19::chr12:89421559..89421571,-p@chr12:89421559..89421571
-
Hg19::chr12:93966332..93966344,+p26@SOCS2
Hg19::chr12:94312960..94312962,-p@chr12:94312960..94312962
-
Hg19::chr12:94337705..94337712,-p1@ENST00000550687
Hg19::chr13:107448278..107448283,+p@chr13:107448278..107448283
+
Hg19::chr13:109310382..109310414,+p@chr13:109310382..109310414
+
Hg19::chr13:84070851..84070863,+p@chr13:84070851..84070863
+
Hg19::chr13:92872139..92872145,+p@chr13:92872139..92872145
+
Hg19::chr14:100841739..100841750,-p12@WARS
Hg19::chr14:64746875..64746885,-p@chr14:64746875..64746885
-
Hg19::chr14:89935615..89935620,-p@chr14:89935615..89935620
-
Hg19::chr15:55529680..55529688,-p@chr15:55529680..55529688
-
Hg19::chr15:55529725..55529732,-p@chr15:55529725..55529732
-
Hg19::chr15:55529837..55529855,-p@chr15:55529837..55529855
-
Hg19::chr15:81061877..81061880,-p@chr15:81061877..81061880
-
Hg19::chr16:10450937..10450942,-p@chr16:10450937..10450942
-
Hg19::chr16:11155837..11155846,-p@chr16:11155837..11155846
-
Hg19::chr17:6745896..6745904,-p@chr17:6745896..6745904
-
Hg19::chr18:62480393..62480396,+p@chr18:62480393..62480396
+
Hg19::chr18:8914110..8914145,+p@chr18:8914110..8914145
+
Hg19::chr19:21770017..21770070,-p1@ENST00000509103
p1@uc002nqe.2
Hg19::chr19:21861007..21861014,-p@chr19:21861007..21861014
-
Hg19::chr19:21861057..21861085,-p@chr19:21861057..21861085
-
Hg19::chr19:21861119..21861122,-p@chr19:21861119..21861122
-
Hg19::chr19:41860089..41860098,+p@chr19:41860089..41860098
+
Hg19::chr19:52005184..52005223,-p4@SIGLEC12
Hg19::chr19:52102540..52102544,+p1@BC034798
Hg19::chr1:101548494..101548504,+p2@ENST00000451213
Hg19::chr1:101550279..101550290,-p@chr1:101550279..101550290
-
Hg19::chr1:101550310..101550314,-p@chr1:101550310..101550314
-
Hg19::chr1:149215297..149215302,-p1@ENST00000517017
Hg19::chr1:185409237..185409244,-p@chr1:185409237..185409244
-
Hg19::chr1:186166946..186166955,-p@chr1:186166946..186166955
-
Hg19::chr1:186166968..186166976,-p@chr1:186166968..186166976
-
Hg19::chr1:246357016..246357020,-p19@SMYD3
Hg19::chr1:246357031..246357043,-p8@SMYD3
Hg19::chr1:246357046..246357053,-p13@SMYD3
Hg19::chr1:246357055..246357065,-p10@SMYD3
Hg19::chr1:248126421..248126422,-p@chr1:248126421..248126422
-
Hg19::chr1:90461589..90461597,+p@chr1:90461589..90461597
+
Hg19::chr20:11560028..11560041,-p@chr20:11560028..11560041
-
Hg19::chr20:23168661..23168671,+p2@uc002wsw.1
Hg19::chr20:23168759..23168765,+p1@ENST00000411595
Hg19::chr20:29463016..29463024,+p@chr20:29463016..29463024
+
Hg19::chr20:45104113..45104118,-p@chr20:45104113..45104118
-
Hg19::chr21:16125761..16125771,-p4@ENST00000454128
Hg19::chr21:16125773..16125787,-p1@ENST00000454128
Hg19::chr21:16135200..16135219,-p@chr21:16135200..16135219
-
Hg19::chr21:16135254..16135263,-p@chr21:16135254..16135263
-
Hg19::chr21:20979193..20979206,-p@chr21:20979193..20979206
-
Hg19::chr21:20979342..20979352,-p@chr21:20979342..20979352
-
Hg19::chr21:20979359..20979385,-p@chr21:20979359..20979385
-
Hg19::chr21:21202916..21202926,-p@chr21:21202916..21202926
-
Hg19::chr21:21202982..21202985,-p@chr21:21202982..21202985
-
Hg19::chr21:21367600..21367604,-p@chr21:21367600..21367604
-
Hg19::chr21:21372122..21372161,-p@chr21:21372122..21372161
-
Hg19::chr21:21372239..21372250,-p@chr21:21372239..21372250
-
Hg19::chr21:21377104..21377109,+p@chr21:21377104..21377109
+
Hg19::chr21:32266017..32266021,+p@chr21:32266017..32266021
+
Hg19::chr21:43981989..43982000,+p@chr21:43981989..43982000
+
Hg19::chr22:30270380..30270382,+p@chr22:30270380..30270382
+
Hg19::chr22:32869636..32869640,-p@chr22:32869636..32869640
-
Hg19::chr2:123793061..123793088,-p@chr2:123793061..123793088
-
Hg19::chr2:124452755..124452774,+p1@ENST00000431242
Hg19::chr2:159992352..159992360,+p24@TANC1
Hg19::chr2:187304524..187304526,-p@chr2:187304524..187304526
-
Hg19::chr2:187420285..187420288,+p@chr2:187420285..187420288
+
Hg19::chr2:194048135..194048139,-p@chr2:194048135..194048139
-
Hg19::chr2:196044487..196044490,-p@chr2:196044487..196044490
-
Hg19::chr2:217750762..217750766,+p@chr2:217750762..217750766
+
Hg19::chr3:107869320..107869324,-p@chr3:107869320..107869324
-
Hg19::chr3:134760394..134760397,-p@chr3:134760394..134760397
-
Hg19::chr3:151634004..151634008,-p@chr3:151634004..151634008
-
Hg19::chr3:155316733..155316741,+p@chr3:155316733..155316741
+
Hg19::chr3:165550629..165550631,-p@chr3:165550629..165550631
-
Hg19::chr3:178236636..178236643,-p@chr3:178236636..178236643
-
Hg19::chr3:183079303..183079309,+p@chr3:183079303..183079309
+
Hg19::chr3:194899235..194899237,+p@chr3:194899235..194899237
+
Hg19::chr3:52713780..52713784,-p18@PBRM1
Hg19::chr3:77146849..77146869,+p44@ROBO2
Hg19::chr4:156831099..156831108,+p@chr4:156831099..156831108
+
Hg19::chr4:156831130..156831160,+p@chr4:156831130..156831160
+
Hg19::chr4:156831165..156831168,+p@chr4:156831165..156831168
+
Hg19::chr4:159520469..159520513,+p@chr4:159520469..159520513
+
Hg19::chr4:159959868..159959874,-p6@C4orf45
Hg19::chr4:159959878..159959889,-p3@C4orf45
Hg19::chr4:175516623..175516646,+p@chr4:175516623..175516646
+
Hg19::chr4:175516672..175516677,+p@chr4:175516672..175516677
+
Hg19::chr4:175516690..175516703,+p@chr4:175516690..175516703
+
Hg19::chr4:175516905..175516912,+p@chr4:175516905..175516912
+
Hg19::chr4:175604048..175604063,-p@chr4:175604048..175604063
-
Hg19::chr4:190802776..190802787,+p1@ENST00000503609
Hg19::chr4:63136352..63136359,+p@chr4:63136352..63136359
+
Hg19::chr4:74958668..74958673,+p@chr4:74958668..74958673
+
Hg19::chr4:74961575..74961579,-p@chr4:74961575..74961579
-
Hg19::chr4:75197145..75197152,-p@chr4:75197145..75197152
-
Hg19::chr4:80116986..80116991,+p1@ENST00000507476
p1@ENST00000507761
p1@ENST00000515597
p1@uc003hls.2
Hg19::chr5:151323023..151323025,+p@chr5:151323023..151323025
+
Hg19::chr5:151326534..151326539,+p@chr5:151326534..151326539
+
Hg19::chr5:151487984..151487988,+p@chr5:151487984..151487988
+
Hg19::chr5:151573968..151573973,+p@chr5:151573968..151573973
+
Hg19::chr5:20313972..20313975,-p@chr5:20313972..20313975
-
Hg19::chr5:25479260..25479266,-p@chr5:25479260..25479266
-
Hg19::chr5:27140770..27140776,-p@chr5:27140770..27140776
-
Hg19::chr5:45038620..45038622,+p@chr5:45038620..45038622
+
Hg19::chr5:45694799..45694803,+p@chr5:45694799..45694803
+
Hg19::chr5:55412774..55412784,-p5@ANKRD55
Hg19::chr5:55412798..55412826,-p3@ANKRD55
Hg19::chr5:80813428..80813456,-p@chr5:80813428..80813456
-
Hg19::chr5:81056711..81056729,-p@chr5:81056711..81056729
-
Hg19::chr6:123689274..123689283,-p@chr6:123689274..123689283
-
Hg19::chr6:123689316..123689324,-p@chr6:123689316..123689324
-
Hg19::chr6:135514234..135514237,-p@chr6:135514234..135514237
-
Hg19::chr6:145156934..145156943,+p@chr6:145156934..145156943
+
Hg19::chr6:145156948..145156958,+p@chr6:145156948..145156958
+
Hg19::chr6:145156968..145156977,+p@chr6:145156968..145156977
+
Hg19::chr6:145156993..145157003,+p@chr6:145156993..145157003
+
Hg19::chr6:162565540..162565545,+p@chr6:162565540..162565545
+
Hg19::chr6:23903074..23903085,-p@chr6:23903074..23903085
-
Hg19::chr6:24974731..24974733,-p@chr6:24974731..24974733
-
Hg19::chr6:2919588..2919590,+p@chr6:2919588..2919590
+
Hg19::chr6:37465165..37465170,+p@chr6:37465165..37465170
+
Hg19::chr6:45414987..45415001,+p@chr6:45414987..45415001
+
Hg19::chr6:54550836..54550845,+p@chr6:54550836..54550845
+
Hg19::chr6:66356511..66356517,-p@chr6:66356511..66356517
-
Hg19::chr7:119584177..119584190,-p@chr7:119584177..119584190
-
Hg19::chr7:143123926..143123957,+p@chr7:143123926..143123957
+
Hg19::chr7:147076040..147076044,+p@chr7:147076040..147076044
+
Hg19::chr7:147076084..147076089,+p@chr7:147076084..147076089
+
Hg19::chr7:147076150..147076155,+p@chr7:147076150..147076155
+
Hg19::chr7:1893440..1893449,+p@chr7:1893440..1893449
+
Hg19::chr8:114083325..114083335,+p@chr8:114083325..114083335
+
Hg19::chr8:114083343..114083350,+p@chr8:114083343..114083350
+
Hg19::chr8:114083596..114083630,+p@chr8:114083596..114083630
+
Hg19::chr8:114168274..114168293,+p@chr8:114168274..114168293
+
Hg19::chr8:120464833..120464838,+p@chr8:120464833..120464838
+
Hg19::chr8:125661200..125661204,-p@chr8:125661200..125661204
-
Hg19::chr8:130558453..130558462,+p@chr8:130558453..130558462
+
Hg19::chr8:130560726..130560739,-p@chr8:130560726..130560739
-
Hg19::chr8:130560752..130560768,-p@chr8:130560752..130560768
-
Hg19::chr8:130560771..130560781,-p@chr8:130560771..130560781
-
Hg19::chr8:130596435..130596439,-p@chr8:130596435..130596439
-
Hg19::chr8:13068794..13068799,+p@chr8:13068794..13068799
+
Hg19::chr8:130735268..130735270,-p@chr8:130735268..130735270
-
Hg19::chr8:13966008..13966024,-p@chr8:13966008..13966024
-
Hg19::chr8:141312910..141312916,-p24@TRAPPC9
Hg19::chr8:17924774..17924781,+p@chr8:17924774..17924781
+
Hg19::chr8:88984168..88984173,+p@chr8:88984168..88984173
+
Hg19::chr8:91267129..91267158,+p@chr8:91267129..91267158
+
Hg19::chr8:91270731..91270743,+p@chr8:91270731..91270743
+
Hg19::chr8:91275313..91275315,+p@chr8:91275313..91275315
+
Hg19::chr9:105828267..105828270,-p@chr9:105828267..105828270
-
Hg19::chr9:135774778..135774781,-p@chr9:135774778..135774781
-
Hg19::chr9:29966003..29966007,-p@chr9:29966003..29966007
-
Hg19::chrX:11153467..11153471,+p@chrX:11153467..11153471
+
Hg19::chrX:135863609..135863618,-p30@ARHGEF6
Hg19::chrX:135866644..135866662,+p@chrX:135866644..135866662
+
Hg19::chrX:47536072..47536081,+p@chrX:47536072..47536081
+
Hg19::chrY:23583803..23583808,-p@chrY:23583803..23583808
-


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:0005148prolactin receptor binding0.0388475220567192
GO:0008269JAK pathway signal transduction adaptor activity0.0388475220567192
GO:0008046axon guidance receptor activity0.0388475220567192
GO:0008268receptor signaling protein tyrosine kinase signaling protein activity0.0388475220567192
GO:0005131growth hormone receptor binding0.0413994100749266
GO:0016568chromatin modification0.0413994100749266
GO:0004830tryptophan-tRNA ligase activity0.0453034349388286
GO:0006436tryptophanyl-tRNA aminoacylation0.0453034349388286



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
chronic leukemia3.99e-508
myeloid leukemia5.04e-1431
leukemia2.03e-1139
hematologic cancer4.95e-0951
immune system cancer4.95e-0951


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
GATA1#2623292.260051357300073.1367205728994e-050.000632668906745926
GATA2#2624312.270648757127441.46045492790064e-050.00034712893084892
TAL1#6886244.11980919688835.28616122714797e-094.23375300921861e-07



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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