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Coexpression cluster:C845: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002049!3.49e-13!79;UBERON:0007798!3.49e-13!79;UBERON:0000914!6.84e-12!83;UBERON:0002329!6.84e-12!83;UBERON:0003077!6.84e-12!83;UBERON:0003059!6.84e-12!83;UBERON:0007282!6.84e-12!83;UBERON:0009618!6.84e-12!83;UBERON:0007285!6.84e-12!83;UBERON:0000486!8.30e-12!82;UBERON:0001637!2.75e-11!42;UBERON:0003509!2.75e-11!42;UBERON:0004572!2.75e-11!42;UBERON:0001981!3.59e-11!60;UBERON:0007500!3.59e-11!60;UBERON:0004537!3.59e-11!60;UBERON:0006965!3.59e-11!60;UBERON:0004290!5.16e-11!70;UBERON:0000055!9.56e-11!69;UBERON:0005256!7.95e-10!143;UBERON:0004872!9.47e-10!84;UBERON:0003914!2.41e-09!118;UBERON:0001134!3.69e-09!61;UBERON:0002036!3.69e-09!61;UBERON:0003082!3.69e-09!61;UBERON:0002385!8.64e-09!63;UBERON:0001015!8.64e-09!63;UBERON:0000383!8.64e-09!63;UBERON:0000490!3.34e-08!138;UBERON:0004535!6.62e-08!110;UBERON:0004573!2.39e-07!33;UBERON:0004571!2.39e-07!33;UBERON:0001009!3.63e-07!113;UBERON:0000468!4.67e-07!659;UBERON:0002100!7.32e-07!216
|ontology_enrichment_uberon=UBERON:0002049!3.49e-13!79;UBERON:0007798!3.49e-13!79;UBERON:0000914!6.84e-12!83;UBERON:0002329!6.84e-12!83;UBERON:0003077!6.84e-12!83;UBERON:0003059!6.84e-12!83;UBERON:0007282!6.84e-12!83;UBERON:0009618!6.84e-12!83;UBERON:0007285!6.84e-12!83;UBERON:0000486!8.30e-12!82;UBERON:0001637!2.75e-11!42;UBERON:0003509!2.75e-11!42;UBERON:0004572!2.75e-11!42;UBERON:0001981!3.59e-11!60;UBERON:0007500!3.59e-11!60;UBERON:0004537!3.59e-11!60;UBERON:0006965!3.59e-11!60;UBERON:0004290!5.16e-11!70;UBERON:0000055!9.56e-11!69;UBERON:0005256!7.95e-10!143;UBERON:0004872!9.47e-10!84;UBERON:0003914!2.41e-09!118;UBERON:0001134!3.69e-09!61;UBERON:0002036!3.69e-09!61;UBERON:0003082!3.69e-09!61;UBERON:0002385!8.64e-09!63;UBERON:0001015!8.64e-09!63;UBERON:0000383!8.64e-09!63;UBERON:0000490!3.34e-08!138;UBERON:0004535!6.62e-08!110;UBERON:0004573!2.39e-07!33;UBERON:0004571!2.39e-07!33;UBERON:0001009!3.63e-07!113;UBERON:0000468!4.67e-07!659;UBERON:0002100!7.32e-07!216
|tf_chipseq_enrich=CTCF#10664;9:4.82423073576752:2.27590399695328e-06:8.12626111240356e-05!ETS1#2113;4:3.89150436888093:0.0140779870843833:0.0494032758679447!HEY1#23462;7:2.828077730174:0.00329539100701931:0.0170498038929005!PBX3#5090;4:8.76580507469765:0.00072866783536506:0.00581059327003829!POLR2A#5430;10:2.14745317655807:0.000479337749163792:0.00436646796205122!RDBP#7936;2:30.727680798005:0.00183992044924957:0.0108884548843594!SIN3A#25942;10:5.40888472681514:4.66075745019938e-08:3.04228029588358e-06!SP1#6667;6:3.41902882688454:0.00320733983912072:0.0168225876585942!TAF7#6879;7:8.00314858344674:3.69807928210857e-06:0.000121111226762037!ZBTB33#10009;8:25.3317800239849:4.18691723397733e-11:4.76337090413244e-09
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112462,0.0277298,0.148811,0.127871,0.263426,0.283652,0.0370288,0.000236758,0.314351,0.291098,0.0159542,0.470608,0.397749,0.0463469,0.0967614,0.000129671,0.140855,0.0142724,1.47828e-07,2.50977e-05,0.0320015,0.289413,0.115935,0.0724446,0.271481,0.00101323,0.669506,0.0375541,0.388852,0.0478428,0.202693,0.00881842,0.000224884,0.0029252,0.231042,0.118074,0.00086626,0.171574,0.237076,0.00103355,0.132555,0.110571,0.123803,0.256803,0.463308,1.35708e-05,0.153887,0.0273504,0.786122,0.106051,0.173693,2.59511e-06,0.125614,0.185352,0.00266068,0.0713173,0.319022,0.321942,0.0821826,0.0922004,0.743414,0.096481,0.123725,0.262911,0.171937,0.000203364,0.00329644,0.0497066,0.00582759,0.373984,1.02912e-05,0.594282,0.676166,0.231968,0.468003,0.0336085,0.48957,0.0493372,0.100283,0.092768,0.456726,0.0917717,0.0393116,0.709133,0.67635,0.149158,0.282725,0.136753,0.000136323,0.00264591,0.319841,0.367901,0.000129191,0.346863,0.590023,0.162583,3.22891e-05,0.157267,0.00136929,0.230272,0.279473,0.0958879,0.108968,0.22657,0.660939,0.000783961,0.0107479,0.00972931,0.000183065,0.345014,0.160198,0.000577697,0.929056,0.179342,0.150014,0.233292,0.188879,0.136095,0.00753343,0.218579,0.000246148,2.69668e-05,0.113765,0.36072,0.027426,0.98703,0.56749,0.537364,0.559783,1.68751e-07,0.0231662,0.318705,0.155403,0.28528,0.179676,0.230462,0.144238,0.322438,0.215644,0.0113371,0.107433,0.120206,0.377654,0.142291,0.000915471,0.00816291,0.277625,0.000494222,0.0535858,0.0104974,0.178172,4.43966e-06,0.0291636,0.105068,0.106059,0.00642521,0.559931,0.300338,0.732963,4.65975e-06,0.0030897,1.24115e-07,0.194062,0.00598068,0.0172771,0.414868,0.110399,0.220174,0.274822,0.187056,0.000205022,0.00237424,0.289311,0.0194843,0.129293,0.0363017,0.388586,0.578187,0.0169432,0.0282253,0.344554,0.253271,0.0474175,0.00793956,0.328599,0.032769,0.00422085,0.28263,1.19738e-05,0.615079,0.0147549,0.0487626,0.0789966,0.305672,0.0615411,0.0826755,0.126106,0.271514,0.0105729,0.0240076,0.0337604,0.246465,0.494232,0.43242,0.00900285,0.908417,0.183756,0.00291102,6.27518e-05,0.000211084,0.583498,0.520128,0.831962,0.115301,0.261668,0.373995,0.137664,0.380034,0.0367779,0.200308,0.000226455,8.67439e-05,0.000300709,0.050763,0.304414,0.0708198,0.283258,4.38002e-05,0.5197,0.00179145,0.775793,8.39673e-05,0.0787054,0.0737206,0.450492,0.84827,0.0687866,0.0265225,0.653168,0.672443,0.0484042,0.44764,0.693631,0.677469,0.00191685,0.228993,0.00578669,0.484236,0.00577761,0.00288837,0.500501,0.013951,0.00622992,0.0229058,0.0592463,0.000176693,0.0264767,0.000423357,0.0129642,0.622052,0.630525,0.0155737,0.014975,0.560768,0.0862834,0.453578,0.338341,0.117811,0.0469295,0.135826,0.0819078,0.290765,0.00115372,0.752099,0.885,0.0752194,0.671122,0.724708,0.53144,0.525677,0.535663,0.334231,0.627764,0.000669905,0.761127,0.80035,0.432068,0.000184867,0.829626,0.286066,0.133414,0.00392468,0.120718,0.582609,0.347515,0.0268413,0.519721,0.0390518,0.486888,0.100717,0.567729,0.0017373,0.100783,0.000918984,0.142061,0.475852,0.748955,0.607721,0.00663941,0.00103479,0.905314,0.257328,0.00171596,0.0102844,0.0102359,0.873907,0.64422,0.166146,0.534174,0.0168371,0.0017311,0.886604,0.455938,0.0385095,0.251906,0.00966544,0.0241527,0.135931,0.390604,0.461721,0.0134188,1.54718e-05,0.00469094,0.115676,0.230285,2.83499e-05,0.592348,0.53157,0.00474925,0.00120414,0.0501836,0.176598,0.291273,0.127183,0.124234,0.0144574,0.787244,6.71407e-07,0.700795,0.898038,0.484318,0.683791,6.6101e-05,0.0803528,0.3344,0.00288608,0.201737,0.215335,0.518685,0.00600257,6.35885e-09,0.368443,0.346038,0.000286032,0.305027,0.146743,0.167977,0.0296375,0.092452,0.783476,0.657798,0.00636836,0.00689582,0.436677,9.84021e-05,0.520341,0.818518,0.804399,0.154259,0.243461,0.695285,0.247257,0.535337,0.476313,0.236882,0.00505036,0.535113,0.108025,0.0342639,0.000589675,0.501058,0.220257,0.0206083,0.446439,0.0349598,0.0224616,0.200496,0.044224,0.269945,0.284002,0.000411254,6.84342e-05,0.794982,0.00341382,0.53945,0.0504935,0.48269,0.00625732,2.49879e-07,0.00175191,2.61279e-12,6.30409e-06,0.0502984,0.00690209,0.0328499,0.355143,0.0393965,0.10457,0.000365274,0.35692,0.0295753,0.00190715,0.000140109,0.257808,0.0808049,5.07793e-11,0.0710305,2.6552e-07,0.207337,0.00830831,0.00419611,0.329711,0.0978515,3.48144e-05,0.445508,3.43049e-05,0.459939,0.122652,0.203837,0.163644,0.143933,0.0884347,0.0405712,0.0158178,0.109286,0.000985552,0.0477598,0.0569723,0.185106,0.00950235,0.437378,0.00165178,0.000911383,0.357319,8.42823e-05,0.126396,0.485196,0.0212533,0.0787475,0.0179968,0.557752,7.00972e-06,7.31649e-06,0.000705606,0.221402,0.0797346,0.0197045,0.532147,2.08598e-06,0.00817031,0.093248,0.0359792,0.00301475,0.33694,0.00181412,0.0156185,5.22228e-05,0.525556,0.394627,0.000955724,0.000378603,0.432878,6.51858e-07,0.018383,0.010707,5.06231e-05,0.0281746,0.288135,0.00108176,7.65035e-07,7.74871e-14,2.4621e-06,0.248778,0.528779,0.00671296,0.167775,0.168268,0.104512,0.237199,0.000399965,0.168156,0.00210807,1.23405e-06,1.89404e-06,0.0333049,0.012824,0.503708,0.0331512,1.72184e-06,0.198269,0.351675,0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}}
}}

Revision as of 12:05, 5 September 2012


Full id: C845_Alveolar_Hair_Olfactory_Osteoblast_Endothelial_Fibroblast_Smooth



Phase1 CAGE Peaks

Hg19::chr17:79477707..79477767,-p@chr17:79477707..79477767
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Hg19::chr17:79477834..79477869,-p@chr17:79477834..79477869
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Hg19::chr17:79478024..79478066,-p@chr17:79478024..79478066
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Hg19::chr17:79478430..79478482,-p5@ACTG1
Hg19::chr17:79478506..79478548,-p4@ACTG1
Hg19::chr17:79478583..79478611,-p7@ACTG1
Hg19::chr17:79478983..79479046,-p6@ACTG1
Hg19::chr17:79479105..79479174,-p3@ACTG1
Hg19::chr17:79479285..79479321,-p2@ACTG1
Hg19::chr17:79479370..79479375,-p10@ACTG1


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><br>


Uber Anatomy
Ontology termp-valuen
vasculature3.49e-1379
vascular system3.49e-1379
somite6.84e-1283
paraxial mesoderm6.84e-1283
presomitic mesoderm6.84e-1283
presumptive segmental plate6.84e-1283
trunk paraxial mesoderm6.84e-1283
presumptive paraxial mesoderm6.84e-1283
multilaminar epithelium8.30e-1282
artery2.75e-1142
arterial blood vessel2.75e-1142
arterial system2.75e-1142
blood vessel3.59e-1160
epithelial tube open at both ends3.59e-1160
blood vasculature3.59e-1160
vascular cord3.59e-1160
dermomyotome5.16e-1170
vessel9.56e-1169
trunk mesenchyme7.95e-10143
splanchnic layer of lateral plate mesoderm9.47e-1084
epithelial tube2.41e-09118
skeletal muscle tissue3.69e-0961
striated muscle tissue3.69e-0961
myotome3.69e-0961
muscle tissue8.64e-0963
musculature8.64e-0963
musculature of body8.64e-0963
unilaminar epithelium3.34e-08138
cardiovascular system6.62e-08110
systemic artery2.39e-0733
systemic arterial system2.39e-0733
circulatory system3.63e-07113
multi-cellular organism4.67e-07659
trunk7.32e-07216


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
CTCF#1066494.824230735767522.27590399695328e-068.12626111240356e-05
ETS1#211343.891504368880930.01407798708438330.0494032758679447
HEY1#2346272.8280777301740.003295391007019310.0170498038929005
PBX3#509048.765805074697650.000728667835365060.00581059327003829
POLR2A#5430102.147453176558070.0004793377491637920.00436646796205122
RDBP#7936230.7276807980050.001839920449249570.0108884548843594
SIN3A#25942105.408884726815144.66075745019938e-083.04228029588358e-06
SP1#666763.419028826884540.003207339839120720.0168225876585942
TAF7#687978.003148583446743.69807928210857e-060.000121111226762037
ZBTB33#10009825.33178002398494.18691723397733e-114.76337090413244e-09



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.