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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C4699_Mesenchymal_Urothelial_vagina_Renal_MCF7_salivary_skeletal
|full_id=C4699_Mesenchymal_Urothelial_vagina_Renal_MCF7_salivary_skeletal
|gostat_on_coexpression_clusters=GO:0006446!regulation of translational initiation!0.0362062875309078!3315$GO:0006986!response to unfolded protein!0.0362062875309078!3315$GO:0051789!response to protein stimulus!0.0362062875309078!3315$GO:0006413!translational initiation!0.0362062875309078!3315$GO:0022618!protein-RNA complex assembly!0.0362062875309078!3315$GO:0009986!cell surface!0.0362062875309078!3315$GO:0006916!anti-apoptosis!0.0362062875309078!3315$GO:0006417!regulation of translation!0.0362062875309078!3315$GO:0031326!regulation of cellular biosynthetic process!0.0362062875309078!3315$GO:0009889!regulation of biosynthetic process!0.0362062875309078!3315$GO:0043066!negative regulation of apoptosis!0.0362062875309078!3315$GO:0043069!negative regulation of programmed cell death!0.0362062875309078!3315$GO:0022613!ribonucleoprotein complex biogenesis and assembly!0.0362062875309078!3315$GO:0009607!response to biotic stimulus!0.0394968125010513!3315$GO:0051674!localization of cell!0.0458005857765218!3315$GO:0006928!cell motility!0.0458005857765218!3315$GO:0051246!regulation of protein metabolic process!0.0474958616438451!3315
|id=C4699
|id=C4699
}}
}}

Revision as of 17:40, 18 May 2012


Full id: C4699_Mesenchymal_Urothelial_vagina_Renal_MCF7_salivary_skeletal



Phase1 CAGE Peaks

Hg19::chr7:75931982..75932005,+p1@HSPB1
Hg19::chr7:75932326..75932393,-p@chr7:75932326..75932393
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Hg19::chrX:49090623..49090648,-p2@HSPB1P2


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


GO IDGO nameFDR corrected p-value
GO:0006446regulation of translational initiation0.0362062875309078
GO:0006986response to unfolded protein0.0362062875309078
GO:0051789response to protein stimulus0.0362062875309078
GO:0006413translational initiation0.0362062875309078
GO:0022618protein-RNA complex assembly0.0362062875309078
GO:0009986cell surface0.0362062875309078
GO:0006916anti-apoptosis0.0362062875309078
GO:0006417regulation of translation0.0362062875309078
GO:0031326regulation of cellular biosynthetic process0.0362062875309078
GO:0009889regulation of biosynthetic process0.0362062875309078
GO:0043066negative regulation of apoptosis0.0362062875309078
GO:0043069negative regulation of programmed cell death0.0362062875309078
GO:0022613ribonucleoprotein complex biogenesis and assembly0.0362062875309078
GO:0009607response to biotic stimulus0.0394968125010513
GO:0051674localization of cell0.0458005857765218
GO:0006928cell motility0.0458005857765218
GO:0051246regulation of protein metabolic process0.0474958616438451



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>


Cell Type
Ontology termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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.