Personal tools

Coexpression cluster:C2611: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 1: Line 1:
{{Coexpression_clusters
{{Coexpression_clusters
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.267114492365523,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0507677008280515,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0522561809686404,0,0,0,0,0,0,0,0.0534241100468889,0.484224129425444,0,0,0,0,0,0,0,0,0.528827851426459,0.43464381180907,0.575319271886925,0.420943412262272,0.377796191379646,0.58734952911769,0.472602467709654,0.710440712166112,0.505069592363764,0.603375897104156,0.530602793588411,0.675850326049668,0.879998547127743,0.472961312378892,0.47684819160078,0.545412803629574,0.686475579702271,0.509825317603286,0.609202914213396,0.289871031843186,0.447929297897515,0,0,0,0,0,0,0,0,0,0,0,0,0.10360579629716,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.140535028032038,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0238698307237727,0.0214178589168123,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1.20161419781727,0.648472289502455,0,0,0,0,0.526747480862324,0,0,0,0,0,0,0,0,0,0,0,0,0.564001248077288,0.34285703410696,0.697301190925716,0,0,0,0,0,0,0,0,0,0,0,0,0,0.081825314342242,0,0,0,0,0,0.216542687324989,0,0,0,0,0,0,0,0,0.347958828004523,0,0,0,0,0,0,0,0,0.0612285549813805,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.089227920235886,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.154253470262378,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.937910872881364,0.517877520952537,0.495475790071966,0.897775065924278,0,0,0,0,0,0,0,0,0,0,0.325051289462021,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.373974746300743,0,0,0,0,0,0,0,0,0,0,0,0,0.0440785955756708,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0519797593570815,0,0,0,1.02248075907196,0,0,0,0,0,0,0,0.229817103740408,0,0,0,0.688810917459047,0.373893307858525,0,0,0,0,0,0,0,0.327827228634254,0,0,0.381234627816988,0.235470832753296,0.238280904943946,0,0,1.23750102466344,0,0,0,0,0,0,0.137741066253898,0.152535577680334,0,0.124418720330136,0.225673018219529,0.179865277721085,0,0,0.622331213421445,0,0,0,0,0.120245177400006,0,0.185552006688486,0,0,0,0,0,0,0,0,0,0,0,0,0.14999995822066,0.439963825292941,0.361202230110741,0,0,0,0.203542102368579,0.845584940475441,0.231161942166744,0,0,0,0.524306396248414,0.344374029099016,0.207404241623363,0.379601429744504,0,0,0,0,0,0,0,0,0,0,0,0.442146758188844,0,0,0,0,0.371040783374226,0,0.370146765105636,0,0,0.218362664726039,0,0,0.51047783003379,0,0,0,0,0,0,0,0,0,0,0,0.102117024171167,0.274556882152476,0,0,0,0.748006657971544,0.836525581907625,1.10318658979675,0.627105401322921,0.858572625298039,0.523933361240077,0.532314590760319,0,0,0,0,0,0,0,0.254120022070344,0.303449865842816,0,0,0,0,0,0.207670909394562,0,0.336702519386186,0.349896204331914,0,0,0,0.72250446895343,0.789293351837981,0,0,0,0,0,0,0,0,0.158258943052669,0.36643582506357,0.311658518895482,0.253676102438086,0,0,0.437989645770826,0.545523838552357,1.03913005501069,0.435416383729387,0,0,0,0.636229754342738,0.730292239883091,0.530959584585466,0.210307218267926,0,0.137778694054377,0.247244003436977,0.33582428674133,0.383200273913616,0.204523932502116,0.290266000911312,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.228893320609944,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.213973808714685,0,0.306103562779226,0.214734898883292,0.210933472170296,0.287261545045121,0.207878669495314,0.293034068460759,0,0,0,0,0,0,0,0.316790024089704,0,0.250789242335245,0,0,0,0.196446104295731,0.125341481644422,0.205967709927606,0.163909958524757,0.251752292825475,0.306115859652835,0.818931282829939,0,0,0.416158607100982,0.151473880794678,0.275585351727143,0.126019343299033,0.454497884130789,0,0,0.264564823145433,0.221284833404731,0,0,0.289722684816826,0.115545892517523,0,0.512015853772859,0,0,0.549538192234978,0,0,0,0,0,0,0,0,0,0,0.549042800793424,0,0,0,0,0,0,0.705821131971418,0.323643686126241,0.42775298531002,0.443714963267834,0,0,0,0,0,0,0.204298582042223,0.383486678956312,0,0.465429582778764,0,0.292902851859961,0.112955512742184,0.323158904187142,0,1.05976392242316,1.10702302792193,0,0,0,0,0.447490958000625,0.367633178518138,0.212431715747328,0,0.237812004183822,0.0786302437294335,0.453211179258455,0,0,0,0,0,0,0,0,0,0,0.366575842350716,0.259689357137263,0.131126968433568,0.23524072591217,0.567637184553932,0.542970823166885,0.0634926687153924,0.292679652433988,0,0.246157989290508,0.703950930628762,0.590392512918445,0.62487746240368,0.172184144600345,0.294008113634132,0.465554371591984,0,0,0,0,0.524579074618365,0.763616714288381,0.450820566804659,0.694602577228161,0.664066205002777,0
|full_id=C2611_Hepatic_heart_breast_Renal_spleen_Endothelial_acute
|full_id=C2611_Hepatic_heart_breast_Renal_spleen_Endothelial_acute
|id=C2611
|id=C2611

Revision as of 15:22, 12 September 2012


Full id: C2611_Hepatic_heart_breast_Renal_spleen_Endothelial_acute



Phase1 CAGE Peaks

Hg19::chr20:30598204..30598223,+p3@C20orf160
Hg19::chr20:30598231..30598260,+p2@C20orf160
Hg19::chr22:51111241..51111260,+p@chr22:51111241..51111260
+
Hg19::chr3:123751833..123751848,+p@chr3:123751833..123751848
+


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
adult organism8.88e-48115
neural tube3.49e-2257
neural rod3.49e-2257
future spinal cord3.49e-2257
neural keel3.49e-2257
central nervous system6.09e-2082
neural plate7.56e-2086
presumptive neural plate7.56e-2086
brain3.47e-1969
future brain3.47e-1969
anatomical conduit7.26e-19241
neurectoderm2.40e-1890
anterior neural tube3.49e-1842
regional part of nervous system3.86e-1894
nervous system3.86e-1894
regional part of brain5.17e-1859
regional part of forebrain2.16e-1741
forebrain2.16e-1741
future forebrain2.16e-1741
anatomical cluster3.62e-17286
tube1.19e-16194
endothelium1.26e-1418
blood vessel endothelium1.26e-1418
cardiovascular system endothelium1.26e-1418
gray matter1.34e-1434
brain grey matter1.34e-1434
telencephalon2.60e-1434
pre-chordal neural plate3.31e-1461
regional part of telencephalon6.11e-1433
cerebral hemisphere1.77e-1332
anterior region of body9.01e-13129
craniocervical region9.01e-13129
head6.85e-12123
simple squamous epithelium2.80e-1122
ectoderm-derived structure3.15e-11169
regional part of cerebral cortex3.60e-1122
ectoderm1.29e-10173
presumptive ectoderm1.29e-10173
epithelium1.50e-10309
cerebral cortex1.64e-1025
pallium1.64e-1025
cell layer2.25e-10312
neocortex2.89e-1020
squamous epithelium1.17e-0925
anatomical system4.68e-08625
multi-cellular organism5.99e-08659
anatomical group6.22e-08626
endothelial tube6.56e-089
arterial system endothelium6.56e-089
endothelium of artery6.56e-089
organ part6.03e-07219


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.

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C2611&oldid=2137309"