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Coexpression cluster:C3021

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Full id: C3021_large_Fibroblast_giant_Lymphatic_medulloblastoma_Endothelial_squamous



Phase1 CAGE Peaks

Hg19::chr10:4823011..4823022,-p@chr10:4823011..4823022
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Hg19::chr10:4823096..4823144,-p@chr10:4823096..4823144
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Hg19::chr10:4823152..4823165,-p@chr10:4823152..4823165
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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
vessel1.87e-2968
vasculature1.25e-2478
vascular system1.25e-2478
epithelial tube open at both ends1.46e-2259
blood vessel1.46e-2259
blood vasculature1.46e-2259
vascular cord1.46e-2259
blood vessel endothelium1.42e-2118
endothelium1.42e-2118
cardiovascular system endothelium1.42e-2118
cardiovascular system4.95e-21109
artery1.93e-2042
arterial blood vessel1.93e-2042
arterial system1.93e-2042
splanchnic layer of lateral plate mesoderm2.36e-2083
circulatory system3.15e-20112
simple squamous epithelium4.09e-1722
systemic artery1.02e-1633
systemic arterial system1.02e-1633
endothelial tube1.63e-159
arterial system endothelium1.63e-159
endothelium of artery1.63e-159
squamous epithelium1.04e-1425
epithelial tube1.72e-14117
unilaminar epithelium1.68e-11148
aorta4.52e-1021
aortic system4.52e-1021
lymphatic vessel6.37e-108
lymph vasculature6.37e-108
lymphatic part of lymphoid system6.37e-108
anatomical conduit1.40e-08240
lymphoid system7.71e-0810
artery wall2.78e-074
tunica adventitia of artery2.78e-074
adventitia2.78e-074
tunica adventitia of blood vessel2.78e-074
aorta tunica adventitia2.78e-074
aorta wall2.78e-074


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
CEBPB#105137.971147625824820.001974187055288560.0114871091351764
EP300#203336.77394172622320.003216880500103790.0166766495855425
FOS#235338.99795530889440.001372499272417130.00894548499201027
GATA2#2624312.7449317335540.0004829527704283790.00435834307359972
JUN#3725312.51282919233630.0005103313992726250.00442972913968033
JUND#372736.994663941871030.002921845042734990.0156089296377596
TCF7L2#6934310.77017656313730.0008003181298398380.00611533693022702



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.