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Coexpression cluster:C4421

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Full id: C4421_glassy_squamous_colon_nasal_salivary_Prostate_seminal



Phase1 CAGE Peaks


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>


Cell Type
Ontology termp-valuen
endo-epithelial cell1.57e-1142
respiratory epithelial cell1.20e-0913
acinar cell2.33e-095
general ecto-epithelial cell3.73e-0914
protein secreting cell8.53e-086
endodermal cell2.14e-0758
Uber Anatomy
Ontology termp-valuen
endoderm-derived structure2.45e-13160
endoderm2.45e-13160
presumptive endoderm2.45e-13160
orifice2.55e-1236
renal system2.93e-1148
digestive system1.91e-10145
digestive tract1.91e-10145
primitive gut1.91e-10145
urinary system structure4.73e-1047
male genital duct1.17e-093
internal male genitalia1.17e-093
surface structure2.91e-0999
subdivision of digestive tract3.88e-09118
male organism4.80e-0922
male reproductive system4.80e-0922
adult organism7.11e-09114
respiratory system1.07e-0774
anterior region of body1.13e-0762
craniocervical region1.13e-0762
organism subdivision1.84e-07264
duct of male reproductive system2.51e-074
throat3.98e-072
oral opening4.08e-0722
cloaca9.03e-0714
anal region9.03e-0714
embryonic cloaca9.03e-0714
terminal part of digestive tract9.03e-0714
primitive urogenital sinus9.03e-0714
proctodeum9.03e-0714


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


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
CTCF#1066435.360256373075030.0064925092527670.0280716693789995
E2F1#186934.907389214879320.008460985347239390.0326965458699154



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.