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Coexpression cluster:C1493

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Full id: C1493_clear_thyroid_endometrioid_serous_throat_anaplastic_renal



Phase1 CAGE Peaks

Hg19::chr2:113982484..113982512,-p@chr2:113982484..113982512
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Hg19::chr2:113982581..113982590,-p@chr2:113982581..113982590
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Hg19::chr2:113982635..113982648,-p8@PAX8
Hg19::chr2:113994209..113994222,-p11@PAX8
Hg19::chr2:114002042..114002053,-p@chr2:114002042..114002053
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Hg19::chr2:114002106..114002117,-p@chr2:114002106..114002117
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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>disease_data<br>


Uber Anatomy
Ontology termp-valuen
cavitated compound organ4.68e-2431
kidney4.02e-2226
kidney mesenchyme4.02e-2226
upper urinary tract4.02e-2226
kidney rudiment4.02e-2226
kidney field4.02e-2226
nephron tubule epithelium1.07e-1710
urinary system structure1.28e-1447
renal system3.05e-1448
excretory tube5.96e-1416
kidney epithelium5.96e-1416
internal genitalia8.94e-1425
thyroid gland3.21e-135
pharyngeal pouch3.21e-135
thyroid diverticulum3.21e-135
pharyngeal pouch 23.21e-135
thyroid primordium3.21e-135
male genital duct1.39e-123
internal male genitalia1.39e-123
reproductive organ1.54e-1248
renal cortex tubule4.56e-123
region of nephron tubule4.56e-123
proximal tubule4.56e-123
nephron epithelium1.82e-1115
renal tubule1.82e-1115
nephron tubule1.82e-1115
nephron1.82e-1115
uriniferous tubule1.82e-1115
nephrogenic mesenchyme1.82e-1115
reproductive structure4.18e-1159
reproductive system4.18e-1159
female reproductive organ2.77e-1037
female reproductive system2.77e-1037
embryonic uterus5.31e-1022
duct of male reproductive system1.53e-094
abdomen element3.89e-0954
abdominal segment element3.89e-0954
compound organ4.47e-0968
female organism4.62e-0941
throat8.00e-092
uterus3.28e-0821
abdominal segment of trunk6.02e-0860
abdomen6.02e-0860
internal female genitalia8.63e-0822
cortex of kidney1.06e-0712
renal parenchyma1.06e-0712


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.