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Coexpression cluster:C4830

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Full id: C4830_small_lung_gastric_hepatoma_Endothelial_mesothelioma_adrenal



Phase1 CAGE Peaks

Hg19::chr9:75518520..75518525,-p@chr9:75518520..75518525
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Hg19::chr9:75567949..75567960,-p2@ALDH1A1
Hg19::chr9:75567962..75567979,-p1@ALDH1A1


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
multi-cellular organism2.77e-15656
adult organism4.59e-13114
anatomical system4.53e-12624
anatomical group6.60e-12625
germ layer7.21e-11560
germ layer / neural crest7.21e-11560
embryonic tissue7.21e-11560
presumptive structure7.21e-11560
germ layer / neural crest derived structure7.21e-11560
epiblast (generic)7.21e-11560
embryonic structure1.10e-10564
embryo1.68e-10592
developing anatomical structure2.87e-10581
immune system3.42e-1093
mesoderm1.48e-09315
mesoderm-derived structure1.48e-09315
presumptive mesoderm1.48e-09315
lateral plate mesoderm3.68e-09203
hemolymphoid system2.82e-08108
subdivision of digestive tract3.24e-08118
unilaminar epithelium3.44e-08148
bone marrow3.54e-0876
gastrointestinal system6.38e-0825
intestine1.76e-0717
vessel3.09e-0768
vasculature9.85e-0778
vascular system9.85e-0778


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.