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Coexpression cluster:C1695: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0004638!1.24e-113!18;UBERON:0001986!1.24e-113!18;UBERON:0004852!1.24e-113!18;UBERON:0000487!2.04e-92!22;UBERON:0006914!5.90e-81!25;UBERON:0003915!1.86e-64!9;UBERON:0004700!1.86e-64!9;UBERON:0001917!1.86e-64!9;UBERON:0000055!5.60e-52!68;UBERON:0007500!3.68e-50!59;UBERON:0001981!3.68e-50!59;UBERON:0004537!3.68e-50!59;UBERON:0006965!3.68e-50!59;UBERON:0002049!8.39e-45!78;UBERON:0007798!8.39e-45!78;UBERON:0004872!1.49e-34!83;UBERON:0004535!6.57e-31!109;UBERON:0001009!5.69e-30!112;UBERON:0001638!6.11e-29!9;UBERON:0003920!6.11e-29!9;UBERON:0004582!6.11e-29!9;UBERON:0003914!1.43e-28!117;UBERON:0001637!1.53e-22!42;UBERON:0003509!1.53e-22!42;UBERON:0004572!1.53e-22!42;UBERON:0000490!1.16e-17!148;UBERON:0000025!1.12e-15!192;UBERON:0005800!1.94e-15!2;UBERON:0001515!1.94e-15!2;UBERON:0003081!1.33e-14!203;UBERON:0004111!2.16e-14!240;UBERON:0002066!1.79e-13!5;UBERON:0010260!7.27e-13!9;UBERON:0000947!4.10e-12!21;UBERON:0010191!4.10e-12!21;UBERON:0010523!1.79e-10!3;UBERON:0001915!1.79e-10!3;UBERON:0001982!1.79e-10!3;UBERON:0004573!5.30e-10!33;UBERON:0004571!5.30e-10!33;UBERON:0000926!7.02e-10!315;UBERON:0004120!7.02e-10!315;UBERON:0006603!7.02e-10!315;UBERON:0000477!2.02e-09!373;UBERON:0000483!2.91e-08!306;UBERON:0002363!3.79e-08!1;UBERON:0007645!3.79e-08!1;UBERON:0007647!3.79e-08!1;UBERON:0010115!3.79e-08!1;UBERON:0000119!3.85e-08!309
|ontology_enrichment_uberon=UBERON:0004638!1.24e-113!18;UBERON:0001986!1.24e-113!18;UBERON:0004852!1.24e-113!18;UBERON:0000487!2.04e-92!22;UBERON:0006914!5.90e-81!25;UBERON:0003915!1.86e-64!9;UBERON:0004700!1.86e-64!9;UBERON:0001917!1.86e-64!9;UBERON:0000055!5.60e-52!68;UBERON:0007500!3.68e-50!59;UBERON:0001981!3.68e-50!59;UBERON:0004537!3.68e-50!59;UBERON:0006965!3.68e-50!59;UBERON:0002049!8.39e-45!78;UBERON:0007798!8.39e-45!78;UBERON:0004872!1.49e-34!83;UBERON:0004535!6.57e-31!109;UBERON:0001009!5.69e-30!112;UBERON:0001638!6.11e-29!9;UBERON:0003920!6.11e-29!9;UBERON:0004582!6.11e-29!9;UBERON:0003914!1.43e-28!117;UBERON:0001637!1.53e-22!42;UBERON:0003509!1.53e-22!42;UBERON:0004572!1.53e-22!42;UBERON:0000490!1.16e-17!148;UBERON:0000025!1.12e-15!192;UBERON:0005800!1.94e-15!2;UBERON:0001515!1.94e-15!2;UBERON:0003081!1.33e-14!203;UBERON:0004111!2.16e-14!240;UBERON:0002066!1.79e-13!5;UBERON:0010260!7.27e-13!9;UBERON:0000947!4.10e-12!21;UBERON:0010191!4.10e-12!21;UBERON:0010523!1.79e-10!3;UBERON:0001915!1.79e-10!3;UBERON:0001982!1.79e-10!3;UBERON:0004573!5.30e-10!33;UBERON:0004571!5.30e-10!33;UBERON:0000926!7.02e-10!315;UBERON:0004120!7.02e-10!315;UBERON:0006603!7.02e-10!315;UBERON:0000477!2.02e-09!373;UBERON:0000483!2.91e-08!306;UBERON:0002363!3.79e-08!1;UBERON:0007645!3.79e-08!1;UBERON:0007647!3.79e-08!1;UBERON:0010115!3.79e-08!1;UBERON:0000119!3.85e-08!309
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|tfbs_overrepresentation_for_novel_motifs=0.508327,0.205703,0.500341,0.654974,0.454983,0.653236,0.733342,0.324142,0.321368,0.703495,0.621241,0.778743,0.274093,0.721271,0.453496,0.478935,0.963929,0.395009,0.784337,0.501863,0.500405,0.384437,0.645033,0.44943,0.549618,0.802434,0.25115,0.642741,0.458349,0.659743,0.598009,1.00172,0.359091,0.27659,1.0713,0.757784,0.413782,0.654459,1.00769,1.48009,0.415749,0.580638,0.414516,0.451846,0.476793,0.533483,0.734485,0.609718,0.785708,0.458489,0.817229,0.746838,1.06581,1.08035,1.2359,0.724351,0.4631,0.689906,0.659455,0.688844,1.04369,0.736968,0.321912,0.935408,0.755773,0.899893,1.32544,1.69665,0.991065,1.53343,0.566575,0.330474,1.05625,1.23387,0.269111,0.255232,0.675933,0.917983,0.987729,0.543014,0.293154,0.934302,0.755403,0.327263,1.18161,0.251545,0.166306,0.647361,0.844289,1.79645,1.41984,1.15413,1.01895,0.367039,0.455791,0.381528,0.780629,1.06255,0.849074,0.606298,0.389604,1.01316,1.05685,0.967698,0.88799,0.616433,0.951411,1.70662,0.549347,0.437618,1.27602,1.05402,0.494368,0.631235,1.37132,0.412056,0.597842,0.596731,0.897476,0.370186,1.22546,0.841768,0.650322,0.767198,1.48307,0.918767,0.72668,1.02407,1.2687,0.382577,1.15483,0.601055,1.28328,0.763715,1.43285,0.629991,0.591636,0.643339,1.38998,2.25246,1.84906,1.35224,0.728494,1.05895,0.889806,1.63047,0.87256,2.09294,0.577088,0.363423,0.177807,0.126633,1.15522,0.312599,1.74559,1.56426,0.827475,0.439798,0.54968,0.518696,1.35101,1.13636,0.98692,0.522159,0.906429,0.754576,0.923751,0.731946,0.233587
}}
}}

Revision as of 15:03, 26 November 2012


Full id: C1695_Endothelial_Renal_Smooth_Hepatic_Natural_Eosinophils_mesodermal



Phase1 CAGE Peaks

Hg19::chr12:96793134..96793145,+p@chr12:96793134..96793145
+
Hg19::chr1:16076084..16076098,-p2@ENST00000418525
Hg19::chr20:62670299..62670342,-p8@ZNF512B
Hg19::chr5:120649811..120649848,+p@chr5:120649811..120649848
+
Hg19::chr6:11607864..11607875,+p@chr6:11607864..11607875
+


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
blood vessel endothelium1.24e-11318
endothelium1.24e-11318
cardiovascular system endothelium1.24e-11318
simple squamous epithelium2.04e-9222
squamous epithelium5.90e-8125
endothelial tube1.86e-649
arterial system endothelium1.86e-649
endothelium of artery1.86e-649
vessel5.60e-5268
epithelial tube open at both ends3.68e-5059
blood vessel3.68e-5059
blood vasculature3.68e-5059
vascular cord3.68e-5059
vasculature8.39e-4578
vascular system8.39e-4578
splanchnic layer of lateral plate mesoderm1.49e-3483
cardiovascular system6.57e-31109
circulatory system5.69e-30112
vein6.11e-299
venous blood vessel6.11e-299
venous system6.11e-299
epithelial tube1.43e-28117
artery1.53e-2242
arterial blood vessel1.53e-2242
arterial system1.53e-2242
unilaminar epithelium1.16e-17148
tube1.12e-15192
segment of aorta1.94e-152
thoracic aorta1.94e-152
lateral plate mesoderm1.33e-14203
anatomical conduit2.16e-14240
umbilical vein1.79e-135
umbilical blood vessel7.27e-139
aorta4.10e-1221
aortic system4.10e-1221
microcirculatory vessel1.79e-103
endothelium of capillary1.79e-103
capillary1.79e-103
systemic artery5.30e-1033
systemic arterial system5.30e-1033
mesoderm7.02e-10315
mesoderm-derived structure7.02e-10315
presumptive mesoderm7.02e-10315
anatomical cluster2.02e-09373
epithelium2.91e-08306
dura mater3.79e-081
future meninx3.79e-081
ectomeninx3.79e-081
future dura mater3.79e-081
cell layer3.85e-08309


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)

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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.

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