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{{Coexpression_clusters
{
|coexpression_dpi_cluster_scores_median=0,0,

Latest revision as of 10:33, 17 September 2013


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)
MA0003.10
MA0004.10.2272
MA0006.10.000340313
MA0007.10.184125
MA0009.10.513
MA0014.11.03038e-13
MA0017.10.329755
MA0019.10.0230329
MA0024.10.0116984
MA0025.10.222801
MA0027.11.20782
MA0028.12.95589e-05
MA0029.10.343063
MA0030.11.53771
MA0031.10.882652
MA0038.10.387503
MA0040.10.885361
MA0041.12.66891
MA0042.12.93506
MA0043.10.0274553
MA0046.11.56198
MA0048.16.78732e-06
MA0050.11.95912
MA0051.11.22311
MA0052.10.899326
MA0055.11.4015e-06
MA0056.10
MA0057.10.0613371
MA0058.10.03336
MA0059.10.00676476
MA0060.11.12017
MA0061.10.0171171
MA0063.10
MA0066.10.0801956
MA0067.10.138576
MA0068.10.282132
MA0069.10.481443
MA0070.10.741425
MA0071.10.279852
MA0072.10.448847
MA0073.10
MA0074.10.732132
MA0076.10.000266468
MA0077.10.433208
MA0078.11.27751
MA0081.10.325221
MA0083.13.86124
MA0084.10.247574
MA0087.11.05975
MA0088.10.0292736
MA0089.10
MA0090.10.15951
MA0091.10.0863543
MA0092.10.150518
MA0093.10.367337
MA0095.10
MA0098.10
MA0100.10.172216
MA0101.10.0343122
MA0103.10.0703941
MA0105.10.00132519
MA0106.10.0580559
MA0107.10.0287128
MA0108.20.215954
MA0109.10
MA0111.10.0713803
MA0113.10.141984
MA0114.10.0652786
MA0115.10.336211
MA0116.10.000827524
MA0117.10.0353862
MA0119.10.185415
MA0122.10.0416779
MA0124.12.07362
MA0125.10.453197
MA0130.10
MA0131.10.0147715
MA0132.10
MA0133.10
MA0135.10.318809
MA0136.13.49691
MA0139.10.000309298
MA0140.16.02533
MA0141.10.0579494
MA0142.11.04575
MA0143.10.803225
MA0144.11.24256
MA0145.11.63155e-07
MA0146.10
MA0147.10.000102356
MA0148.12.75324
MA0149.10.000129859
MA0062.20.00019149
MA0035.24.54238
MA0039.21.81535e-13
MA0138.20.041285
MA0002.20.0699759
MA0137.21.75084
MA0104.20.00108995
MA0047.22.91904
MA0112.20.000289673
MA0065.20.00868145
MA0150.12.11948
MA0151.10
MA0152.10.595117
MA0153.10.745592
MA0154.16.95369e-05
MA0155.17.65671e-09
MA0156.12.03575
MA0157.10.658645
MA0158.10
MA0159.10.00543722
MA0160.10.0752796
MA0161.10
MA0162.10
MA0163.14.82164e-17
MA0164.10.627505
MA0080.23.07833
MA0018.20.123632
MA0099.21.56241
MA0079.20
MA0102.20.748958
MA0258.10.218199
MA0259.10.000150054
MA0442.10



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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