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{{Coexpression_clusters
{
|coexpression_dpi_cluster_scores_median=0,0,0,

Latest revision as of 10:29, 17 September 2013


Full id: C93_chronic_acute_leukemia_acantholytic_medulloblastoma_testis_papillotubular



Phase1 CAGE Peaks

Hg19::chr10:11927830..11927841,-p@chr10:11927830..11927841
-
Hg19::chr10:11940545..11940575,-p@chr10:11940545..11940575
-
Hg19::chr10:52316698..52316713,+p@chr10:52316698..52316713
+
Hg19::chr10:5522516..5522528,-p@chr10:5522516..5522528
-
Hg19::chr11:1372935..1372952,+p@chr11:1372935..1372952
+
Hg19::chr11:5150823..5150837,+p@chr11:5150823..5150837
+
Hg19::chr11:5291163..5291182,-p1@HBE1
Hg19::chr11:5526872..5526884,-p1@OR51B5
p2@HBE1
Hg19::chr11:85820536..85820567,+p1@BC016696
Hg19::chr11:85820575..85820593,+p2@BC016696
Hg19::chr12:23874396..23874433,-p@chr12:23874396..23874433
-
Hg19::chr12:23874501..23874508,-p@chr12:23874501..23874508
-
Hg19::chr12:31868671..31868685,+p@chr12:31868671..31868685
+
Hg19::chr14:102176584..102176593,-p@chr14:102176584..102176593
-
Hg19::chr14:37641855..37641867,-p5@SLC25A21
Hg19::chr14:76724603..76724631,+p@chr14:76724603..76724631
+
Hg19::chr15:34949928..34949947,+p@chr15:34949928..34949947
+
Hg19::chr15:34950041..34950071,+p@chr15:34950041..34950071
+
Hg19::chr15:34950105..34950148,+p@chr15:34950105..34950148
+
Hg19::chr15:83838027..83838034,-p@chr15:83838027..83838034
-
Hg19::chr15:91192144..91192162,+p@chr15:91192144..91192162
+
Hg19::chr15:96679063..96679075,-p@chr15:96679063..96679075
-
Hg19::chr16:11332670..11332681,+p@chr16:11332670..11332681
+
Hg19::chr16:202637..202675,+p2@HBZ
Hg19::chr16:54908072..54908081,-p@chr16:54908072..54908081
-
Hg19::chr16:9085975..9085982,+p@chr16:9085975..9085982
+
Hg19::chr17:40427641..40427655,-p@chr17:40427641..40427655
-
Hg19::chr17:40441330..40441344,+p9@STAT5A
Hg19::chr17:40441354..40441410,+p2@STAT5A
Hg19::chr17:40441412..40441419,+p20@STAT5A
Hg19::chr17:40469366..40469383,-p17@STAT3
Hg19::chr17:40469457..40469494,-p14@STAT3
Hg19::chr17:40469520..40469532,-p12@STAT3
Hg19::chr17:40471984..40472008,-p@chr17:40471984..40472008
-
Hg19::chr17:40472023..40472044,-p@chr17:40472023..40472044
-
Hg19::chr17:40472047..40472059,-p@chr17:40472047..40472059
-
Hg19::chr17:46708584..46708599,-p@chr17:46708584..46708599
-
Hg19::chr18:813221..813236,-p@chr18:813221..813236
-
Hg19::chr18:8913991..8914004,+p@chr18:8913991..8914004
+
Hg19::chr18:9812085..9812091,-p@chr18:9812085..9812091
-
Hg19::chr19:29035609..29035622,-p@chr19:29035609..29035622
-
Hg19::chr19:29037236..29037241,-p@chr19:29037236..29037241
-
Hg19::chr19:38806165..38806183,-p@chr19:38806165..38806183
-
Hg19::chr19:49651648..49651655,+p@chr19:49651648..49651655
+
Hg19::chr19:50878292..50878316,+p@chr19:50878292..50878316
+
Hg19::chr19:55549773..55549784,-p3@GP6
Hg19::chr19:917090..917103,-p@chr19:917090..917103
-
Hg19::chr19:917115..917124,-p@chr19:917115..917124
-
Hg19::chr1:100828693..100828719,+p@chr1:100828693..100828719
+
Hg19::chr1:12717632..12717640,-p@chr1:12717632..12717640
-
Hg19::chr1:144995002..144995057,-p11@PDE4DIP
Hg19::chr1:144995074..144995085,-p21@PDE4DIP
Hg19::chr1:146369648..146369656,-p@chr1:146369648..146369656
-
Hg19::chr1:15104171..15104180,-p@chr1:15104171..15104180
-
Hg19::chr1:15104189..15104213,-p@chr1:15104189..15104213
-
Hg19::chr1:155271191..155271202,-p4@PKLR
Hg19::chr1:155271213..155271234,-p2@PKLR
Hg19::chr1:156883474..156883490,+p4@PEAR1
Hg19::chr1:161132076..161132086,+p7@USP21
Hg19::chr1:194616937..194616943,-p@chr1:194616937..194616943
-
Hg19::chr1:244530412..244530450,+p@chr1:244530412..244530450
+
Hg19::chr1:246151834..246151867,-p4@SMYD3
Hg19::chr1:65946781..65946791,-p@chr1:65946781..65946791
-
Hg19::chr20:56100155..56100163,-p2@CTCFL
Hg19::chr21:16125690..16125700,-p3@ENST00000454128
Hg19::chr21:16126130..16126154,-p2@ENST00000455253
Hg19::chr21:16126181..16126192,-p4@ENST00000455253
Hg19::chr21:22519416..22519487,+p4@NCAM2
Hg19::chr21:25263242..25263269,+p@chr21:25263242..25263269
+
Hg19::chr22:20105259..20105283,+p3@RANBP1
Hg19::chr22:21213287..21213304,+p3@SNAP29
Hg19::chr22:22900001..22900057,-p2@PRAME
Hg19::chr22:22901399..22901408,-p6@PRAME
Hg19::chr22:22901414..22901437,-p3@PRAME
Hg19::chr22:22901442..22901461,-p5@PRAME
Hg19::chr22:22901477..22901499,-p4@PRAME
Hg19::chr22:22901636..22901715,-p1@PRAME
Hg19::chr2:158115255..158115266,+p13@GALNT5
Hg19::chr2:168797676..168797690,-p1@ENST00000436982
Hg19::chr2:201754233..201754242,+p4@NIF3L1
Hg19::chr2:76157615..76157618,+p@chr2:76157615..76157618
+
Hg19::chr2:97559771..97559781,-p@chr2:97559771..97559781
-
Hg19::chr2:97560860..97560872,-p3@FAM178B
Hg19::chr2:97560893..97560910,-p4@FAM178B
Hg19::chr2:97587795..97587801,-p@chr2:97587795..97587801
-
Hg19::chr2:97595058..97595091,-p@chr2:97595058..97595091
-
Hg19::chr3:101351334..101351339,+p@chr3:101351334..101351339
+
Hg19::chr3:132029141..132029151,+p@chr3:132029141..132029151
+
Hg19::chr3:14294399..14294412,-p@chr3:14294399..14294412
-
Hg19::chr3:195870209..195870220,-p@chr3:195870209..195870220
-
Hg19::chr3:33978063..33978070,+p@chr3:33978063..33978070
+
Hg19::chr3:38060516..38060530,-p10@PLCD1
Hg19::chr3:38060540..38060563,-p7@PLCD1
Hg19::chr3:38060565..38060575,-p13@PLCD1
Hg19::chr3:38060580..38060593,-p14@PLCD1
Hg19::chr3:60263284..60263305,-p@chr3:60263284..60263305
-
Hg19::chr4:10187460..10187471,-p@chr4:10187460..10187471
-
Hg19::chr4:10187482..10187491,-p@chr4:10187482..10187491
-
Hg19::chr4:10187518..10187525,-p@chr4:10187518..10187525
-
Hg19::chr4:127656623..127656632,-p@chr4:127656623..127656632
-
Hg19::chr4:127656639..127656648,-p@chr4:127656639..127656648
-
Hg19::chr4:127877220..127877225,+p@chr4:127877220..127877225
+
Hg19::chr4:187680261..187680278,-p@chr4:187680261..187680278
-
Hg19::chr4:56502502..56502513,-p2@NMU
Hg19::chr5:53609450..53609488,+p@chr5:53609450..53609488
+
Hg19::chr5:54034050..54034065,-p@chr5:54034050..54034065
-
Hg19::chr5:89953953..89953970,+p@chr5:89953953..89953970
+
Hg19::chr6:13678786..13678795,+p@chr6:13678786..13678795
+
Hg19::chr6:16266026..16266031,+p@chr6:16266026..16266031
+
Hg19::chr6:16267990..16268002,-p@chr6:16267990..16268002
-
Hg19::chr6:164749433..164749438,-p@chr6:164749433..164749438
-
Hg19::chr6:164759144..164759155,-p@chr6:164759144..164759155
-
Hg19::chr6:28583973..28583983,-p7@SCAND3
Hg19::chr6:30840600..30840605,-p@chr6:30840600..30840605
-
Hg19::chr6:68591133..68591142,-p@chr6:68591133..68591142
-
Hg19::chr6:68591611..68591627,-p@chr6:68591611..68591627
-
Hg19::chr6:68591651..68591660,-p@chr6:68591651..68591660
-
Hg19::chr6:68591719..68591728,-p@chr6:68591719..68591728
-
Hg19::chr6:68592711..68592723,-p@chr6:68592711..68592723
-
Hg19::chr6:68592948..68592958,-p@chr6:68592948..68592958
-
Hg19::chr6:68592986..68593000,-p@chr6:68592986..68593000
-
Hg19::chr6:68593158..68593168,-p@chr6:68593158..68593168
-
Hg19::chr6:68593206..68593218,-p@chr6:68593206..68593218
-
Hg19::chr6:68593227..68593234,-p@chr6:68593227..68593234
-
Hg19::chr6:68593250..68593259,-p@chr6:68593250..68593259
-
Hg19::chr6:68593264..68593275,-p@chr6:68593264..68593275
-
Hg19::chr6:68593520..68593534,-p@chr6:68593520..68593534
-
Hg19::chr6:68593536..68593560,-p@chr6:68593536..68593560
-
Hg19::chr6:68593587..68593600,-p@chr6:68593587..68593600
-
Hg19::chr6:68593630..68593641,-p@chr6:68593630..68593641
-
Hg19::chr6:68593653..68593661,-p@chr6:68593653..68593661
-
Hg19::chr6:68593762..68593772,-p@chr6:68593762..68593772
-
Hg19::chr6:68593819..68593828,-p@chr6:68593819..68593828
-
Hg19::chr6:68594786..68594797,-p@chr6:68594786..68594797
-
Hg19::chr6:68594800..68594812,-p@chr6:68594800..68594812
-
Hg19::chr6:68595249..68595265,-p@chr6:68595249..68595265
-
Hg19::chr6:68595369..68595417,-p@chr6:68595369..68595417
-
Hg19::chr6:68595490..68595501,-p@chr6:68595490..68595501
-
Hg19::chr6:68595866..68595871,-p@chr6:68595866..68595871
-
Hg19::chr6:68596289..68596302,-p@chr6:68596289..68596302
-
Hg19::chr6:68596343..68596355,-p@chr6:68596343..68596355
-
Hg19::chr6:68596384..68596400,-p@chr6:68596384..68596400
-
Hg19::chr6:68596655..68596664,-p@chr6:68596655..68596664
-
Hg19::chr6:68596698..68596715,-p@chr6:68596698..68596715
-
Hg19::chr6:68596757..68596769,-p@chr6:68596757..68596769
-
Hg19::chr6:68596783..68596797,-p@chr6:68596783..68596797
-
Hg19::chr6:68596826..68596859,-p@chr6:68596826..68596859
-
Hg19::chr6:68597240..68597258,-p@chr6:68597240..68597258
-
Hg19::chr6:68597438..68597450,-p@chr6:68597438..68597450
-
Hg19::chr6:68597572..68597583,-p@chr6:68597572..68597583
-
Hg19::chr6:68597599..68597612,-p@chr6:68597599..68597612
-
Hg19::chr6:68597965..68597975,-p@chr6:68597965..68597975
-
Hg19::chr6:68597994..68598005,-p@chr6:68597994..68598005
-
Hg19::chr6:68598190..68598207,-p@chr6:68598190..68598207
-
Hg19::chr6:68598245..68598268,-p@chr6:68598245..68598268
-
Hg19::chr6:68598272..68598298,-p@chr6:68598272..68598298
-
Hg19::chr6:68598314..68598325,-p@chr6:68598314..68598325
-
Hg19::chr6:68598366..68598367,-p@chr6:68598366..68598367
-
Hg19::chr6:68598473..68598480,-p@chr6:68598473..68598480
-
Hg19::chr6:68598507..68598519,-p@chr6:68598507..68598519
-
Hg19::chr6:68598534..68598555,-p@chr6:68598534..68598555
-
Hg19::chr6:68598587..68598598,-p@chr6:68598587..68598598
-
Hg19::chr6:68598642..68598649,-p@chr6:68598642..68598649
-
Hg19::chr6:68598674..68598685,-p@chr6:68598674..68598685
-
Hg19::chr6:68598984..68598997,-p2@uc003pes.1
p2@uc003pet.1
Hg19::chr6:68599042..68599067,-p1@uc003pes.1
p1@uc003pet.1
Hg19::chr6:71104588..71104593,+p1@ENST00000418403
Hg19::chr7:106650705..106650710,+p@chr7:106650705..106650710
+
Hg19::chr7:10819582..10819601,-p1@MGC4859
Hg19::chr7:110969544..110969578,-p@chr7:110969544..110969578
-
Hg19::chr7:120716625..120716660,+p3@C7orf58
Hg19::chr7:12443477..12443496,-p2@VWDE
Hg19::chr7:12443501..12443549,-p1@VWDE
Hg19::chr7:145482072..145482103,+p@chr7:145482072..145482103
+
Hg19::chr7:150652884..150652911,-p2@KCNH2
Hg19::chr7:150652924..150652927,-p5@KCNH2
Hg19::chr7:16301644..16301664,+p@chr7:16301644..16301664
+
Hg19::chr7:1894852..1894864,-p@chr7:1894852..1894864
-
Hg19::chr7:84509904..84509926,-p@chr7:84509904..84509926
-
Hg19::chr8:130587179..130587190,-p2@ENST00000520048
Hg19::chr8:130587239..130587250,-p1@ENST00000520048
Hg19::chr8:130587254..130587271,-p1@ENST00000523151
Hg19::chr8:130703341..130703361,-p@chr8:130703341..130703361
-
Hg19::chr8:93889862..93889867,-p1@ENST00000504861
p1@uc003yfj.1
Hg19::chr9:101836652..101836660,+p@chr9:101836652..101836660
+
Hg19::chr9:132620630..132620639,+p@chr9:132620630..132620639
+
Hg19::chr9:132620647..132620657,+p@chr9:132620647..132620657
+
Hg19::chr9:132620675..132620685,+p@chr9:132620675..132620685
+
Hg19::chrX:120325900..120325903,+p@chrX:120325900..120325903
+
Hg19::chrX:48216123..48216142,-p1@SSX3
Hg19::chrX:49006889..49006893,-p@chrX:49006889..49006893
-
Hg19::chrX:53285072..53285085,-p@chrX:53285072..53285085
-
Hg19::chrX:65146038..65146063,-p@chrX:65146038..65146063
-
Hg19::chrX:65219587..65219598,+p2@ENST00000424241
Hg19::chrX:65219618..65219630,+p1@ENST00000424241
Hg19::chrX:65219642..65219651,+p3@ENST00000424241
Hg19::chrX:65382468..65382486,+p7@HEPH
Hg19::chrX:65382506..65382520,+p5@HEPH


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:0005344oxygen transporter activity0.0283369321172339
GO:0005833hemoglobin complex0.0283369321172339
GO:0015671oxygen transport0.0283369321172339
GO:0015669gas transport0.0283369321172339
GO:0007259JAK-STAT cascade0.0337650888844149
GO:0019221cytokine and chemokine mediated signaling pathway0.034230002126629



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>cell_data<br><br>disease_data<br>

Disease
Ontology termp-valuen
chronic leukemia3.51e-1268
myeloid leukemia1.29e-4431
leukemia1.45e-3539
hematologic cancer2.68e-2751
immune system cancer2.68e-2751
organ system cancer2.97e-10137


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
MA0004.10.301055
MA0006.10.00208312
MA0007.10.163546
MA0009.10.986439
MA0014.11.55103e-07
MA0017.10.707075
MA0019.10.146576
MA0024.10.905034
MA0025.10.175128
MA0027.11.1536
MA0028.10.0508108
MA0029.11.32573
MA0030.10.0400836
MA0031.10.154713
MA0038.10.541958
MA0040.10.128944
MA0041.10.0118825
MA0042.10.110532
MA0043.10.0184883
MA0046.10.197984
MA0048.10.00311995
MA0050.10.0653375
MA0051.10.00117748
MA0052.10.00945133
MA0055.10.000186317
MA0056.10
MA0057.10.226953
MA0058.10.263163
MA0059.10.183024
MA0060.10.554847
MA0061.10.202283
MA0063.10
MA0066.10.161685
MA0067.10.112617
MA0068.10.283557
MA0069.10.19367
MA0070.11.24255
MA0071.10.104393
MA0072.10.176646
MA0073.19.16111e-16
MA0074.10.152853
MA0076.10.43143
MA0077.10.168595
MA0078.10.127626
MA0081.10.737252
MA0083.18.97391
MA0084.10.212764
MA0087.10.174069
MA0088.10.332634
MA0089.10
MA0090.10.197891
MA0091.10.021281
MA0092.10.677658
MA0093.10.851641
MA0095.10
MA0098.10
MA0100.10.292909
MA0101.10.88295
MA0103.10.0743695
MA0105.10.00542134
MA0106.10.367331
MA0107.10.4941
MA0108.20.679008
MA0109.10
MA0111.10.910788
MA0113.10.416228
MA0114.10.287488
MA0115.10.982016
MA0116.10.0714745
MA0117.10.0245967
MA0119.12.53433
MA0122.10.0295583
MA0124.10.868864
MA0125.10.160524
MA0130.10
MA0131.10.0736182
MA0132.10
MA0133.10
MA0135.10.0233172
MA0136.10.408418
MA0139.10.00189391
MA0140.16.52384
MA0141.10.885446
MA0142.10.120512
MA0143.10.274196
MA0144.14.21073
MA0145.15.70302e-05
MA0146.17.50096e-05
MA0147.10.112872
MA0148.10.179811
MA0149.10.153141
MA0062.20.134091
MA0035.23.75153
MA0039.20.000218248
MA0138.21.00155
MA0002.20.0722726
MA0137.22.11878
MA0104.20.100006
MA0047.21.12546
MA0112.20.032789
MA0065.20.120302
MA0150.10.120946
MA0151.10
MA0152.10.408726
MA0153.10.147389
MA0154.10.00698375
MA0155.10.0291589
MA0156.11.90882
MA0157.10.493455
MA0158.10
MA0159.10.011189
MA0160.10.599653
MA0161.10
MA0162.12.18504e-09
MA0163.18.36363e-05
MA0164.10.642952
MA0080.21.19113
MA0018.20.0027599
MA0099.20.283523
MA0079.20
MA0102.20.236057
MA0258.10.295169
MA0259.10.0252074
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
BCLAF1#9774242.624563346681431.73503593280259e-050.000396597543851981
CCNT2#905541.728054975535262.68061715754257e-050.000574396748700427
CEBPB#1051371.489557889674330.008477302118065170.0323857252143027
EP300#2033511.744803171905983.77975373697703e-050.000724053009053824
FOSL1#8061132.60745725410530.00167353162813660.010462853619333
GATA1#2623412.807942595433421.57197945279297e-091.38428298541522e-07
GATA2#2624603.862100525319392.39924507755598e-206.2332029018624e-18
GTF2B#2959416.614631451046947.32054180697282e-222.01728249545761e-19
GTF2F1#2962271.737226483194220.003600178675366580.0182267226078147
HDAC2#3066302.032669732822160.0001688229537323470.00206363535403237
HEY1#234621342.734216564526095.76912849911248e-373.02774880059703e-34
IRF1#3659401.542861364356340.003352533598369060.0172923378348512
JUNB#3726223.401181406646796.93073331937382e-073.12134047926728e-05
JUND#3727491.731002692685256.91628010916107e-050.00110262460436677
NFYA#4800252.326462209574568.11158374164022e-050.00122920152987981
NFYB#4801221.862199250392940.003847442990925760.018982572681845
POLR2A#54301511.637704190203381.42432502866397e-173.02347726968772e-15
RDBP#793653.879757676515780.009978098865114430.0374278155146244
REST#5978472.29066338211124.84680267984e-083.14211809484674e-06
SIRT6#5154875.431660747122090.0003529358185972350.00353711390063109
SMARCA4#65971411.08445780964865.90319776546865e-116.58679563491219e-09
SPI1#6688381.574567137999310.003049682241991980.0160869621532098
STAT2#6773216.921915125834626.06475609983619e-127.81971681865175e-10
TAF1#6872761.283189483417380.006573007353549920.0280894600841851
TAF7#6879341.963254342259660.0001147372211074930.0015701049050374
TAL1#68866910.40876035728983.61501129343888e-502.67764655656357e-47
TBP#69081122.096759176539371.85613842701936e-184.19595760128734e-16
YY1#7528731.810684165350166.14492866018935e-083.8042098656877e-06



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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