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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
kidney6.60e-2526
kidney mesenchyme6.60e-2526
upper urinary tract6.60e-2526
kidney rudiment6.60e-2526
kidney field6.60e-2526
cavitated compound organ7.57e-2431
abdomen element3.10e-2154
abdominal segment element3.10e-2154
abdominal segment of trunk1.13e-1860
abdomen1.13e-1860
excretory tube1.00e-1516
kidney epithelium1.00e-1516
trunk region element8.11e-15101
nephron tubule epithelium1.17e-1410
urinary system structure1.27e-1447
renal system2.98e-1448
male genital duct4.04e-143
internal male genitalia4.04e-143
renal cortex tubule3.67e-133
region of nephron tubule3.67e-133
proximal tubule3.67e-133
nephron epithelium7.83e-1315
renal tubule7.83e-1315
nephron tubule7.83e-1315
nephron7.83e-1315
uriniferous tubule7.83e-1315
nephrogenic mesenchyme7.83e-1315
cortex of kidney5.49e-1212
renal parenchyma5.49e-1212
subdivision of trunk1.76e-11112
duct of male reproductive system1.07e-104
compound organ1.48e-1068
reproductive organ3.91e-1048
internal genitalia8.34e-1025
cortex1.84e-0915
parenchyma1.84e-0915
reproductive structure8.71e-0859
reproductive system8.71e-0859
immaterial anatomical entity3.14e-07117
Disease
Ontology termp-valuen
clear cell adenocarcinoma5.93e-102
adenocarcinoma9.44e-1025


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.