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Coexpression cluster:C2794

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Full id: C2794_clear_kidney_serous_renal_epididymis_Renal_transitionalcell



Phase1 CAGE Peaks

Hg19::chr4:69917141..69917154,+p6@UGT2B7
Hg19::chr4:69917201..69917235,+p2@UGT2B7
Hg19::chr4:69929665..69929672,+p@chr4:69929665..69929672
+
Hg19::chr4:69929694..69929699,+p@chr4:69929694..69929699
+


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 organ4.61e-1932
kidney2.11e-1827
kidney mesenchyme2.11e-1827
kidney rudiment2.11e-1827
kidney field2.11e-1827
abdomen element1.27e-1755
abdominal segment element1.27e-1755
urinary system structure3.98e-1744
renal system1.31e-1645
mesonephros3.19e-1618
pronephros3.19e-1618
nephrogenic cord3.19e-1618
pronephric mesoderm3.19e-1618
rostral part of nephrogenic cord3.19e-1618
presumptive pronephric mesoderm3.19e-1618
abdominal segment of trunk3.43e-1561
abdomen3.43e-1561
excretory tube1.64e-1417
mesonephric epithelium1.64e-1417
mesonephric tubule1.64e-1417
nephric duct1.64e-1417
kidney epithelium1.64e-1417
renal duct1.64e-1417
mesonephric duct1.64e-1417
pronephric duct1.64e-1417
renal tubule2.59e-1412
nephron tubule2.59e-1412
nephron tubule epithelium2.59e-1412
duct2.64e-1426
urogenital ridge2.82e-1420
intraembryonic coelom1.91e-1321
nephron epithelium1.08e-1216
nephron1.08e-1216
uriniferous tubule1.08e-1216
metanephric mesenchyme1.08e-1216
nephrogenic mesenchyme1.08e-1216
internal genitalia6.52e-1225
intermediate mesoderm1.26e-1137
trunk region element1.24e-10107
cortex of kidney2.89e-1013
renal parenchyma2.89e-1013
embryonic uterus2.04e-0922
immaterial anatomical entity2.66e-09126
reproductive organ6.31e-0948
reproductive structure2.50e-0859
reproductive system2.50e-0859
uterus3.16e-0821
body cavity precursor4.46e-0863
male genital duct4.90e-083
internal male genitalia4.90e-083
cortex4.97e-0816
subdivision of trunk5.41e-08113
renal cortex tubule5.88e-083
region of nephron tubule5.88e-083
proximal tubule5.88e-083
internal female genitalia9.34e-0822
anatomical cavity1.00e-0770
parenchyma1.84e-0717
compound organ4.91e-0769
female reproductive organ7.33e-0737
female reproductive system7.33e-0737
Disease
Ontology termp-valuen
adenocarcinoma1.63e-1025
female reproductive endometrioid cancer2.62e-096


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.