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Coexpression cluster:C3035

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Full id: C3035_prostate_signet_epidermoid_Keratinocyte_giant_Mammary_mucinous



Phase1 CAGE Peaks

Hg19::chr10:6779293..6779312,+p4@ENST00000417112
Hg19::chr10:6779326..6779351,+p3@ENST00000417112
Hg19::chr10:6779369..6779400,+p1@ENST00000417112


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
endoderm-derived structure1.60e-17160
endoderm1.60e-17160
presumptive endoderm1.60e-17160
organ part7.48e-16218
respiratory system3.71e-1474
respiratory tract2.55e-1254
urinary system structure2.98e-1247
renal system8.65e-1248
multi-tissue structure2.37e-11342
digestive system2.60e-11145
digestive tract2.60e-11145
primitive gut2.60e-11145
segment of respiratory tract3.52e-1147
respiratory primordium1.51e-1038
endoderm of foregut1.51e-1038
larynx5.47e-109
nephron tubule epithelium8.62e-1010
extraembryonic membrane3.20e-0914
membranous layer3.20e-0914
organ3.28e-09503
excretory tube1.20e-0816
kidney epithelium1.20e-0816
organ segment2.10e-0898
organism subdivision2.13e-08264
nephron epithelium4.53e-0815
renal tubule4.53e-0815
nephron tubule4.53e-0815
nephron4.53e-0815
uriniferous tubule4.53e-0815
nephrogenic mesenchyme4.53e-0815
subdivision of digestive tract1.46e-07118
endo-epithelium3.77e-0782
upper respiratory tract5.18e-0719
foregut6.06e-0787
Disease
Ontology termp-valuen
carcinoma3.58e-15106
squamous cell carcinoma5.61e-1414
cell type cancer1.63e-08143


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
EP300#203336.77394172622320.003216880500103790.0166791333242486
GTF2F1#2962312.73966087675770.0004835525047438590.00432637197318118
JUN#3725312.51282919233630.0005103313992726250.00443009733261023
JUND#372736.994663941871030.002921845042734990.0156113252375403
NR3C1#2908314.9730233311730.0002978331194675480.00307791343400666
RFX5#5993312.04791082719510.0005717246050312580.00482859016859612
STAT1#6772320.70658749719920.0001125992441046670.00154388242812752
STAT3#6774310.51946499715420.0008589184530415310.00641388419256431



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.