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Coexpression cluster:C834: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000914!7.67e-20!83;UBERON:0002329!7.67e-20!83;UBERON:0003077!7.67e-20!83;UBERON:0003059!7.67e-20!83;UBERON:0007282!7.67e-20!83;UBERON:0009618!7.67e-20!83;UBERON:0007285!7.67e-20!83;UBERON:0004290!4.30e-18!70;UBERON:0002385!4.07e-17!63;UBERON:0001015!4.07e-17!63;UBERON:0000383!4.07e-17!63;UBERON:0001134!4.47e-17!61;UBERON:0002036!4.47e-17!61;UBERON:0003082!4.47e-17!61;UBERON:0005256!1.21e-14!143;UBERON:0000486!2.01e-14!82;UBERON:0004872!6.88e-14!84;UBERON:0000475!1.23e-10!365;UBERON:0002100!6.16e-10!216;UBERON:0002049!1.44e-09!79;UBERON:0007798!1.44e-09!79;UBERON:0001637!3.94e-09!42;UBERON:0003509!3.94e-09!42;UBERON:0004572!3.94e-09!42;UBERON:0004923!9.62e-09!57;UBERON:0001009!1.19e-08!113;UBERON:0004535!2.00e-08!110;UBERON:0000481!3.59e-08!347;UBERON:0007100!4.49e-08!27;UBERON:0000948!4.57e-08!24;UBERON:0005498!4.57e-08!24;UBERON:0004140!4.57e-08!24;UBERON:0009881!4.57e-08!24;UBERON:0004141!4.57e-08!24;UBERON:0003084!4.57e-08!24;UBERON:0007005!4.57e-08!24;UBERON:0004139!4.57e-08!24;UBERON:0004291!4.57e-08!24;UBERON:0002199!6.69e-08!45;UBERON:0002416!6.69e-08!45;UBERON:0003914!1.01e-07!118;UBERON:0001981!1.16e-07!60;UBERON:0007500!1.16e-07!60;UBERON:0004537!1.16e-07!60;UBERON:0006965!1.16e-07!60;UBERON:0004573!1.31e-07!33;UBERON:0004571!1.31e-07!33;UBERON:0000490!1.36e-07!138;UBERON:0000468!2.44e-07!659;UBERON:0005631!2.45e-07!14;UBERON:0000158!2.45e-07!14;UBERON:0000055!4.15e-07!69;UBERON:0003104!7.03e-07!238;UBERON:0009142!7.03e-07!238
|ontology_enrichment_uberon=UBERON:0000914!7.67e-20!83;UBERON:0002329!7.67e-20!83;UBERON:0003077!7.67e-20!83;UBERON:0003059!7.67e-20!83;UBERON:0007282!7.67e-20!83;UBERON:0009618!7.67e-20!83;UBERON:0007285!7.67e-20!83;UBERON:0004290!4.30e-18!70;UBERON:0002385!4.07e-17!63;UBERON:0001015!4.07e-17!63;UBERON:0000383!4.07e-17!63;UBERON:0001134!4.47e-17!61;UBERON:0002036!4.47e-17!61;UBERON:0003082!4.47e-17!61;UBERON:0005256!1.21e-14!143;UBERON:0000486!2.01e-14!82;UBERON:0004872!6.88e-14!84;UBERON:0000475!1.23e-10!365;UBERON:0002100!6.16e-10!216;UBERON:0002049!1.44e-09!79;UBERON:0007798!1.44e-09!79;UBERON:0001637!3.94e-09!42;UBERON:0003509!3.94e-09!42;UBERON:0004572!3.94e-09!42;UBERON:0004923!9.62e-09!57;UBERON:0001009!1.19e-08!113;UBERON:0004535!2.00e-08!110;UBERON:0000481!3.59e-08!347;UBERON:0007100!4.49e-08!27;UBERON:0000948!4.57e-08!24;UBERON:0005498!4.57e-08!24;UBERON:0004140!4.57e-08!24;UBERON:0009881!4.57e-08!24;UBERON:0004141!4.57e-08!24;UBERON:0003084!4.57e-08!24;UBERON:0007005!4.57e-08!24;UBERON:0004139!4.57e-08!24;UBERON:0004291!4.57e-08!24;UBERON:0002199!6.69e-08!45;UBERON:0002416!6.69e-08!45;UBERON:0003914!1.01e-07!118;UBERON:0001981!1.16e-07!60;UBERON:0007500!1.16e-07!60;UBERON:0004537!1.16e-07!60;UBERON:0006965!1.16e-07!60;UBERON:0004573!1.31e-07!33;UBERON:0004571!1.31e-07!33;UBERON:0000490!1.36e-07!138;UBERON:0000468!2.44e-07!659;UBERON:0005631!2.45e-07!14;UBERON:0000158!2.45e-07!14;UBERON:0000055!4.15e-07!69;UBERON:0003104!7.03e-07!238;UBERON:0009142!7.03e-07!238
|tfbs_overrepresentation=0.0168461,0.017775,0.922456,0.150384,0.0395579,0.00111601,0.136302,0.832146,0.104964,0.0831451,0.393776,0.0111845,8.81975e-05,0.010804,0.41524,0.191841,0.00183576,0.291459,0.165563,0.0565777,0.0337522,0.0124998,0.248068,0.00477896,0.00911949,0.00942906,0.00128659,0.271678,0.0157332,0.00455928,0.0424568,0.062529,0.0588503,0.0443577,0.205046,0.00340872,0.19708,0.136184,0.347824,0.00171058,0.28694,0.0797086,0.00178844,7.56544e-05,0.0696563,0.115779,0.00766038,0.144641,5.65639e-05,0.00101816,0.427495,0.169456,0.215332,0.277731,0.0390261,0.122412,4.75447e-05,0.190199,0.238047,0.000593086,0.094776,0.0175558,0.318333,0.0291376,0.170596,0.158604,0.0162181,0.0185647,0.259191,0.456261,0.023008,0.000102984,0.267169,0.345428,0.0247035,0.0559282,0.0458026,0.138367,0.0073614,0.0239712,0.0450358,0.0114789,0.00952005,0.33412,0.109409,0.619817,0.198829,0.0001629,0.0975078,0.19427,0.258338,0.0128451,0.284049,0.149368,0.257343,0.00832519,0.946641,0.107637,0.0425203,0.0234402,0.179095,0.292749,0.0151582,0.1183,0.0509813,0.130032,0.0229299,0.399663,0.40496,0.648645,0.489357,0.108897,1.65873e-06,0.0577447,0.00575945,0.108144,0.0662012,0.17668,0.392833,0.0351485,0.00351689,0.193246,0.39542,1.55259e-05,0.302313,0.477418,0.0407626,0.0484658,0.254556,0.0851404,0.185151,0.22839,0.016937,0.0739549,0.00117729,0.0566198,8.70721e-05,0.172836,0.10595,0.0131235,0.0739229,0.0768918,0.0418719,0.110624,0.358541,0.212944,0.293085,0.254195,0.12401,0.0695673,0.172122,0.403708,6.78329e-05,0.0858906,0.135403,0.340875,0.228181,0.0117648,0.0139247,0.10806,0.577411,0.0447308,7.14321e-05,2.02256e-05,0.655258,0.06277,0.127319,0.00123592,0.128294,0.130861,0.00469701,0.0883714,0.874888,0.000926555,0.000198622,0.0402492,0.00180316,0.000641997,0.140393,0.11392,3.12168e-05,0.0713145,0.0884684,0.0640866,0.2253,0.0674761,0.146766,0.127753,0.250503,0.133701,0.314612,0.00550994,0.0718088,0.579402,0.0611405,0.148473,0.00272796,0.187196,0.0233649,0.32106,0.0395975,0.018797,0.0991267,0.188112,0.0135686,0.00367566,0.0232647,0.0183763,0.180524,0.480474,0.144874,0.0530252,0.00966162,0.0613708,0.000319151,0.127635,0.00331666,0.0498339,0.194981,1.18489e-07,0.399643,0.072484,0.43197,0.0216836,0.225677,0.0757977,0.392435,0.0368587,0.00128175,0.186071,0.0660837,0.801958,0.132786,0.233018,0.0452939,0.278261,0.000619638,0.0200875,0.0226342,0.0482992,0.00498346,0.057258,0.291976,0.251108,0.0648149,1.27284e-05,0.246793,3.74443e-06,0.0212838,0.065583,0.114523,2.01046e-10,0.0323338,0.291007,0.291167,0.00297642,0.00680458,0.528373,0.0246587,0.787124,0.0197192,0.0274289,0.120127,0.0113314,0.110483,0.245583,0.245846,0.27526,0.34219,0.230285,0.296352,0.195831,0.624772,0.0502677,0.0373601,0.121285,0.0797451,0.173266,0.784881,0.747662,0.434524,6.79548e-06,0.828645,0.796984,0.0495345,0.118305,0.000627646,0.585938,0.0215246,0.349329,0.191337,1.95418e-10,0.00757129,0.0117625,0.0156399,0.104063,0.000793695,0.110224,0.0318916,0.0913625,1.16036e-05,0.18994,0.00074229,0.000933773,0.00490438,0.0028856,0.00731864,0.011993,0.0505,0.55373,0.00123075,0.0193731,0.139283,0.109475,0.443781,0.0207366,0.10724,0.0734473,0.0757342,0.000883149,0.336446,0.0019296,0.00972895,0.000243702,0.000706523,0.19855,0.00568941,0.133752,0.00287902,0.109786,0.00103381,0.0271637,1.91643e-05,0.00663451,0.366259,0.0141707,0.79,1.03286e-05,0.0975298,0.030726,0.773944,0.925299,0.0193352,0.0943169,0.0134266,0.150468,0.170655,0.116522,0.000776751,0.00663115,0.0100157,0.909657,0.000245407,0.000462754,0.30182,0.00633195,0.119955,9.92604e-05,0.223539,6.28081e-07,0.358703,0.705326,0.0747657,0.262652,0.0139081,0.0519082,0.000464784,0.139452,0.560592,0.131638,0.000249075,0.142604,0.0282711,3.43566e-05,0.274765,0.0318487,0.205725,0.112751,0.408793,0.173328,0.314821,0.0451753,0.736148,0.295831,0.797386,0.0413692,0.578099,0.00284644,0.00096815,0.0199415,0.306625,0.0110211,0.0247633,0.00272403,4.66617e-05,0.779023,0.0027855,0.000208597,0.408019,0.222667,0.0222257,0.0505678,5.77233e-05,0.620489,0.106446,0.146977,0.0137524,0.019003,0.0849748,3.09963e-05,4.15469e-06,0.030325,0.00577443,0.00324517,0.000277494,0.343343,0.00437026,0.207006,0.00392528,0.0269785,0.00389712,0.00424494,0.211118,0.00880519,0.00256133,0.000174828,0.00141798,0.844559,0.536913,0.709454,0.0663695,0.30059,0.648485,0.40173,0.281265,0.00546824,0.0931181,0.147517,0.0128438,2.63275e-06,0.0642802,0.00523917,0.0597611,0.503617,0.0394608,0.185106,0.106357,0.413509,0.000681452,0.00514725,0.0156939,0.00659873,1.37641e-05,0.131095,0.0202982,0.0398602,0.214215,0.173851,0.509775,0.23715,0.179332,0.000205149,0.0108158,0.17658,0.309776,0.856737,0.508221,0.0603992,0.107465,0.00048736,0.0341903,0.362844,0.0131206,0.31396,0.287865,7.65818e-05,0.798288,0.0584635,0.0079487,0.0253057,0.491009,0.146713,0.461789,0.333461,0.0532167,0.000316248,0.260877,0.440384,0.00678065,0.138876,0.0129098,0.072516,0.369332,0.544928,1.04065e-05,0.414156,0.0130407,0.250573,0.205529,0.0306393,0.0597467,0.562014,0.0026728,0.515911,0.0820259,0.501939,0.151764,0.524643,0.098699,0.0112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}}
}}

Revision as of 20:53, 8 August 2012


Full id: C834_Fibroblast_Sertoli_chorionic_Smooth_Synoviocyte_Preadipocyte_normal



Phase1 CAGE Peaks

Hg19::chr15:48703363..48703377,-p@chr15:48703363..48703377
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Hg19::chr15:48703464..48703484,-p@chr15:48703464..48703484
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Hg19::chr15:48712914..48712923,-p@chr15:48712914..48712923
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Hg19::chr15:48712928..48712948,-p@chr15:48712928..48712948
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Hg19::chr15:48729997..48730011,-p@chr15:48729997..48730011
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Hg19::chr15:48808480..48808519,-p@chr15:48808480..48808519
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Hg19::chr15:48818352..48818368,-p@chr15:48818352..48818368
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Hg19::chr15:48818401..48818413,-p@chr15:48818401..48818413
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Hg19::chr15:48826377..48826399,-p@chr15:48826377..48826399
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Hg19::chr15:48936886..48936898,-p13@FBN1


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
somite7.67e-2083
paraxial mesoderm7.67e-2083
presomitic mesoderm7.67e-2083
presumptive segmental plate7.67e-2083
trunk paraxial mesoderm7.67e-2083
presumptive paraxial mesoderm7.67e-2083
dermomyotome4.30e-1870
muscle tissue4.07e-1763
musculature4.07e-1763
musculature of body4.07e-1763
skeletal muscle tissue4.47e-1761
striated muscle tissue4.47e-1761
myotome4.47e-1761
trunk mesenchyme1.21e-14143
multilaminar epithelium2.01e-1482
splanchnic layer of lateral plate mesoderm6.88e-1484
organism subdivision1.23e-10365
trunk6.16e-10216
vasculature1.44e-0979
vascular system1.44e-0979
artery3.94e-0942
arterial blood vessel3.94e-0942
arterial system3.94e-0942
organ component layer9.62e-0957
circulatory system1.19e-08113
cardiovascular system2.00e-08110
multi-tissue structure3.59e-08347
primary circulatory organ4.49e-0827
heart4.57e-0824
primitive heart tube4.57e-0824
primary heart field4.57e-0824
anterior lateral plate mesoderm4.57e-0824
heart tube4.57e-0824
heart primordium4.57e-0824
cardiac mesoderm4.57e-0824
cardiogenic plate4.57e-0824
heart rudiment4.57e-0824
integument6.69e-0845
integumental system6.69e-0845
epithelial tube1.01e-07118
blood vessel1.16e-0760
epithelial tube open at both ends1.16e-0760
blood vasculature1.16e-0760
vascular cord1.16e-0760
systemic artery1.31e-0733
systemic arterial system1.31e-0733
unilaminar epithelium1.36e-07138
multi-cellular organism2.44e-07659
extraembryonic membrane2.45e-0714
membranous layer2.45e-0714
vessel4.15e-0769
mesenchyme7.03e-07238
entire embryonic mesenchyme7.03e-07238


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


No analysis results for this cluster

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.