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{{Coexpression_clusters
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458349,1.22891,1.45697,1.00172,0.359091,0.27659,1.88355,0.0526856,0.413782,0.654459,0.388123,0.301779,1.06799,0.580638,0.821929,1.14615,0.476793,0.533483,0.734485,0.609718,0.124583,0.458489,0.817229,0.746838,0.560115,1.08035,1.2359,0.724351,0.4631,0.689906,0.233662,0.688844,1.04369,0.736968,0.321912,0.935408,0.755773,0.899893,1.32544,1.69665,0.991065,1.53343,1.39076,0.880217,0.554326,1.23387,1.36104,0.255232,0.675933,2.11876,0.987729,0.543014,0.796279,0.934302,0.755403,0.327263,1.18161,0.0719601,0.166306,0.228496,0.844289,1.79645,1.41984,2.59889,1.01895,0.367039,0.455791,0.381528,0.28626,1.06255,0.849074,0.606298,0.389604,1.01316,1.05685,0.967698,0.88799,0.616433,0.951411,0.717647,1.35434,0.437618,0.512457,1.05402,0.494368,0.631235,1.37132,0.412056,0.285668,0.596731,0.897476,0.370186,1.22546,0.841768,0.650322,1.80913,1.48307,0.918767,0.72668,1.02407,1.2687,0.995523,1.15483,0.601055,1.28328,0.763715,1.43285,0.221105,1.44357,0.643339,1.38998,2.25246,1.84906,1.35224,1.7291,1.05895,0.889806,0.680988,0.87256,2.09294,0.577088,0.953361,0.177807,1.29319,1.15522,0.312599,0.736459,1.56426,0.827475,0.439798,0.54968,0.518696,1.35101,1.13636,0.98692,0.522159,0.906429,0.754576,0.35004,0.731946,4.10331|tfbs_overrepresentation_jaspar=MA0003.1;0.737422,MA0004.1;0.626788,MA0006.1;0.452993,MA0007.1;1.47524,MA0009.1;1.11255,MA0014.1;1.45664,MA0017.1;0.496101,MA0019.1;0.784036,MA0024.1;1.00439,MA0025.1;1.24931,MA0027.1;2.73598,MA0028.1;0.470679,MA0029.1;1.02437,MA0030.1;1.01252,MA0031.1;0.945567,MA0038.1;0.736268,MA0040.1;1.03042,MA0041.1;0.64667,MA0042.1;0.612397,MA0043.1;1.11288,MA0046.1;1.10134,MA0048.1;1.08193,MA0050.1;1.48918,MA0051.1;0.731787,MA0052.1;1.03442,MA0055.1;0.0853006,MA0056.1;0,MA0057.1;0.189508,MA0058.1;0.523638,MA0059.1;0.522232,MA0060.1;0.321781,MA0061.1;0.291022,MA0063.1;0,MA0066.1;0.736721,MA0067.1;1.43651,MA0068.1;0.247962,MA0069.1;1.09737,MA0070.1;1.08584,MA0071.1;0.695094,MA0072.1;1.0812,MA0073.1;0.215829,MA0074.1;0.730989,MA0076.1;0.540943,MA0077.1;1.07324,MA0078.1;0.836493,MA0081.1;0.522409,MA0083.1;1.12028,MA0084.1;1.62584,MA0087.1;1.07867,MA0088.1;0.412364,MA0089.1;0,MA0090.1;0.556637,MA0091.1;0.629594,MA0092.1;0.588959,MA0093.1;0.456342,MA0095.1;0,MA0098.1;0,MA0100.1;0.750974,MA0101.1;0.459973,MA0103.1;0.442769,MA0105.1;0.175503,MA0106.1;0.779931,MA0107.1;0.378225,MA0108.2;0.94238,MA0109.1;0,MA0111.1;0.5713,MA0113.1;0.797251,MA0114.1;0.372523,MA0115.1;1.35895,MA0116.1;2.64838,MA0117.1;1.1512,MA0119.1;1.25946,MA0122.1;1.17777,MA0124.1;1.31673,MA0125.1;1.23103,MA0130.1;0,MA0131.1;1.99092,MA0132.1;0,MA0133.1;0,MA0135.1;1.14377,MA0136.1;0.743749,MA0139.1;0.277033,MA0140.1;0.692258,MA0141.1;0.520334,MA0142.1;0.912455,MA0143.1;0.797437,MA0144.1;0.356507,MA0145.1;0.442008,MA0146.1;1.35428,MA0147.1;0.386018,MA0148.1;0.653474,MA0149.1;0.681935,MA0062.2;0.284987,MA0035.2;0.691506,MA0039.2;0.311551,MA0138.2;0.837782,MA0002.2;0.30855,MA0137.2;0.47779,MA0104.2;0.320919,MA0047.2;0.767096,MA0112.2;0.425004,MA0065.2;0.146576,MA0150.1;0.550239,MA0151.1;0,MA0152.1;0.69926,MA0153.1;1.21379,MA0154.1;0.514087,MA0155.1;0.409315,MA0156.1;1.20729,MA0157.1;0.883854,MA0158.1;0,MA0159.1;1.00463,MA0160.1;0.669748,MA0161.1;0,MA0162.1;2.27598,MA0163.1;0.0439995,MA0164.1;0.810347,MA0080.2;0.456437,MA0018.2;0.781393,MA0099.2;1.66926,MA0079.2;0.0442129,MA0102.2;1.66336,MA0258.1;0.345771,MA0259.1;0.395396,MA0442.1;0}}
|full_id=C2004_Endothelial_mesenchymal_Renal_Smooth_Hepatic_leiomyoma_Preadipocyte
|id=C2004
|ontology_enrichment_celltype=CL:0000055!7.87e-29!180;CL:0000222!1.14e-25!119;CL:0000680!5.17e-20!57;CL:0000056!5.17e-20!57;CL:0000355!5.17e-20!57;CL:0000183!8.37e-20!59;CL:0000187!4.71e-19!54;CL:0000192!3.06e-17!42;CL:0000514!3.06e-17!42;CL:0002139!5.34e-16!24;CL:0000393!5.50e-16!60;CL:0000211!5.50e-16!60;CL:0000359!6.24e-15!32;CL:0000115!1.06e-14!35;CL:0000057!1.43e-14!75;CL:0000071!2.63e-12!18;CL:0002546!2.63e-12!18;CL:0002078!4.30e-12!44;CL:0000220!3.69e-08!246;CL:0000213!5.97e-08!57;CL:0000215!5.97e-08!57;CL:0002321!9.14e-08!248;CL:0002494!2.40e-07!16;CL:1000413!7.23e-07!9
|ontology_enrichment_disease=DOID:2394!7.95e-07!14
|ontology_enrichment_uberon=UBERON:0004535!1.47e-38!110;UBERON:0001009!2.23e-38!113;UBERON:0002049!9.27e-33!79;UBERON:0007798!9.27e-33!79;UBERON:0000055!1.70e-30!69;UBERON:0004872!9.16e-30!84;UBERON:0001981!2.80e-27!60;UBERON:0007500!2.80e-27!60;UBERON:0004537!2.80e-27!60;UBERON:0006965!2.80e-27!60;UBERON:0003914!2.09e-25!118;UBERON:0000914!5.59e-23!83;UBERON:0002329!5.59e-23!83;UBERON:0003077!5.59e-23!83;UBERON:0003059!5.59e-23!83;UBERON:0007282!5.59e-23!83;UBERON:0009618!5.59e-23!83;UBERON:0007285!5.59e-23!83;UBERON:0004290!1.66e-22!70;UBERON:0000477!2.37e-21!286;UBERON:0001637!2.82e-20!42;UBERON:0003509!2.82e-20!42;UBERON:0004572!2.82e-20!42;UBERON:0000490!5.32e-20!138;UBERON:0001134!6.89e-20!61;UBERON:0002036!6.89e-20!61;UBERON:0003082!6.89e-20!61;UBERON:0002385!1.27e-19!63;UBERON:0001015!1.27e-19!63;UBERON:0000383!1.27e-19!63;UBERON:0005256!2.06e-19!143;UBERON:0000486!4.70e-17!82;UBERON:0004573!1.09e-15!33;UBERON:0004571!1.09e-15!33;UBERON:0000119!1.24e-15!312;UBERON:0000468!3.18e-15!659;UBERON:0004111!3.44e-15!241;UBERON:0000483!4.46e-15!309;UBERON:0002100!1.05e-14!216;UBERON:0000481!1.49e-14!347;UBERON:0000467!1.49e-13!625;UBERON:0003104!3.20e-13!238;UBERON:0009142!3.20e-13!238;UBERON:0000480!3.21e-13!626;UBERON:0000475!3.60e-13!365;UBERON:0000025!2.08e-12!194;UBERON:0001986!2.63e-12!18;UBERON:0004638!2.63e-12!18;UBERON:0004852!2.63e-12!18;UBERON:0000487!1.88e-11!22;UBERON:0000926!5.43e-11!448;UBERON:0004120!5.43e-11!448;UBERON:0006603!5.43e-11!448;UBERON:0006914!3.30e-10!25;UBERON:0000947!1.47e-09!21;UBERON:0010191!1.47e-09!21;UBERON:0002050!6.49e-09!605;UBERON:0005423!6.49e-09!605;UBERON:0000948!8.23e-09!24;UBERON:0005498!8.23e-09!24;UBERON:0004140!8.23e-09!24;UBERON:0009881!8.23e-09!24;UBERON:0004141!8.23e-09!24;UBERON:0003084!8.23e-09!24;UBERON:0007005!8.23e-09!24;UBERON:0004139!8.23e-09!24;UBERON:0004291!8.23e-09!24;UBERON:0000923!9.30e-09!604;UBERON:0005291!9.30e-09!604;UBERON:0006598!9.30e-09!604;UBERON:0002532!9.30e-09!604;UBERON:0000922!1.12e-08!612;UBERON:0007100!1.37e-08!27;UBERON:0003103!1.24e-07!69;UBERON:0000479!2.06e-07!787;UBERON:0003915!7.23e-07!9;UBERON:0004700!7.23e-07!9;UBERON:0001917!7.23e-07!9
}}

Latest revision as of 11:56, 17 September 2013


Full id: C2004_Endothelial_mesenchymal_Renal_Smooth_Hepatic_leiomyoma_Preadipocyte



Phase1 CAGE Peaks

Hg19::chr7:93551017..93551029,+p7@GNG11
Hg19::chr7:93551089..93551142,+p2@GNG11
Hg19::chr7:93551321..93551336,+p6@GNG11
Hg19::chr7:93551356..93551375,+p1@GNG11
Hg19::chr7:93551389..93551406,+p5@GNG11


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

No GOStat results

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>uberon_data<br>disease_data<br>

Uber Anatomy
Ontology termp-valuen
cardiovascular system4.31e-36109
circulatory system7.50e-36112
vasculature9.83e-3278
vascular system9.83e-3278
vessel1.30e-2968
splanchnic layer of lateral plate mesoderm2.10e-2883
epithelial tube open at both ends2.05e-2659
blood vessel2.05e-2659
blood vasculature2.05e-2659
vascular cord2.05e-2659
epithelial tube1.17e-25117
epithelial vesicle5.13e-2478
unilaminar epithelium1.25e-22148
somite3.97e-2271
presomitic mesoderm3.97e-2271
presumptive segmental plate3.97e-2271
dermomyotome3.97e-2271
trunk paraxial mesoderm3.97e-2271
dense mesenchyme tissue7.97e-2273
paraxial mesoderm8.96e-2272
presumptive paraxial mesoderm8.96e-2272
artery5.08e-2042
arterial blood vessel5.08e-2042
arterial system5.08e-2042
skeletal muscle tissue3.93e-1962
striated muscle tissue3.93e-1962
myotome3.93e-1962
muscle tissue7.21e-1964
musculature7.21e-1964
musculature of body7.21e-1964
mesenchyme2.41e-17160
entire embryonic mesenchyme2.41e-17160
trunk mesenchyme3.62e-17122
cell layer4.67e-17309
anatomical cluster1.06e-16373
multilaminar epithelium1.18e-1683
epithelium1.76e-16306
systemic artery1.91e-1533
systemic arterial system1.91e-1533
anatomical conduit3.90e-15240
multi-cellular organism1.07e-14656
multi-tissue structure1.87e-14342
organism subdivision2.49e-14264
trunk3.83e-14199
anatomical system3.19e-13624
anatomical group6.21e-13625
tube1.59e-12192
blood vessel endothelium4.14e-1218
endothelium4.14e-1218
cardiovascular system endothelium4.14e-1218
simple squamous epithelium2.91e-1122
mesoderm4.03e-11315
mesoderm-derived structure4.03e-11315
presumptive mesoderm4.03e-11315
squamous epithelium9.63e-1025
aorta1.63e-0921
aortic system1.63e-0921
heart1.91e-0824
primitive heart tube1.91e-0824
primary heart field1.91e-0824
anterior lateral plate mesoderm1.91e-0824
heart tube1.91e-0824
heart primordium1.91e-0824
cardiac mesoderm1.91e-0824
cardiogenic plate1.91e-0824
heart rudiment1.91e-0824
primary circulatory organ3.57e-0827
compound organ8.23e-0868
embryo1.40e-07592
developing anatomical structure3.36e-07581
endothelial tube8.18e-079
arterial system endothelium8.18e-079
endothelium of artery8.18e-079
Disease
Ontology termp-valuen
ovarian cancer3.14e-0714


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)
MA0003.10.737422
MA0004.10.626788
MA0006.10.452993
MA0007.11.47524
MA0009.11.11255
MA0014.11.45664
MA0017.10.496101
MA0019.10.784036
MA0024.11.00439
MA0025.11.24931
MA0027.12.73598
MA0028.10.470679
MA0029.11.02437
MA0030.11.01252
MA0031.10.945567
MA0038.10.736268
MA0040.11.03042
MA0041.10.64667
MA0042.10.612397
MA0043.11.11288
MA0046.11.10134
MA0048.11.08193
MA0050.11.48918
MA0051.10.731787
MA0052.11.03442
MA0055.10.0853006
MA0056.10
MA0057.10.189508
MA0058.10.523638
MA0059.10.522232
MA0060.10.321781
MA0061.10.291022
MA0063.10
MA0066.10.736721
MA0067.11.43651
MA0068.10.247962
MA0069.11.09737
MA0070.11.08584
MA0071.10.695094
MA0072.11.0812
MA0073.10.215829
MA0074.10.730989
MA0076.10.540943
MA0077.11.07324
MA0078.10.836493
MA0081.10.522409
MA0083.11.12028
MA0084.11.62584
MA0087.11.07867
MA0088.10.412364
MA0089.10
MA0090.10.556637
MA0091.10.629594
MA0092.10.588959
MA0093.10.456342
MA0095.10
MA0098.10
MA0100.10.750974
MA0101.10.459973
MA0103.10.442769
MA0105.10.175503
MA0106.10.779931
MA0107.10.378225
MA0108.20.94238
MA0109.10
MA0111.10.5713
MA0113.10.797251
MA0114.10.372523
MA0115.11.35895
MA0116.12.64838
MA0117.11.1512
MA0119.11.25946
MA0122.11.17777
MA0124.11.31673
MA0125.11.23103
MA0130.10
MA0131.11.99092
MA0132.10
MA0133.10
MA0135.11.14377
MA0136.10.743749
MA0139.10.277033
MA0140.10.692258
MA0141.10.520334
MA0142.10.912455
MA0143.10.797437
MA0144.10.356507
MA0145.10.442008
MA0146.11.35428
MA0147.10.386018
MA0148.10.653474
MA0149.10.681935
MA0062.20.284987
MA0035.20.691506
MA0039.20.311551
MA0138.20.837782
MA0002.20.30855
MA0137.20.47779
MA0104.20.320919
MA0047.20.767096
MA0112.20.425004
MA0065.20.146576
MA0150.10.550239
MA0151.10
MA0152.10.69926
MA0153.11.21379
MA0154.10.514087
MA0155.10.409315
MA0156.11.20729
MA0157.10.883854
MA0158.10
MA0159.11.00463
MA0160.10.669748
MA0161.10
MA0162.12.27598
MA0163.10.0439995
MA0164.10.810347
MA0080.20.456437
MA0018.20.781393
MA0099.21.66926
MA0079.20.0442129
MA0102.21.66336
MA0258.10.345771
MA0259.10.395396
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
CTCF#1066444.288205098460020.005152015588243280.0239472765152227
EBF1#187947.12517347725520.0007230531046774210.00577463815855358
FOS#235358.99795530889441.69470025615156e-050.000389937871892956
GATA2#2624410.19594538684320.0001775447777609820.0021583749324385
NR3C1#2908514.9730233311731.32777388277837e-065.26067437570144e-05
RAD21#588536.21302033727380.007751055068811640.0318994538492185
REST#597847.720022972902420.0005286363773650570.00457492994826228
SMARCB1#6598414.60217262492594.30486693344344e-050.000768934492324097
TFAP2A#7020516.5186343730458.12390055913032e-073.54407706973689e-05
TFAP2C#7022510.80922860986026.77323239348459e-060.000197539686663819



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

This analysis result is provided for C0 - C305 clusters.

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