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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C2086_smooth_bladder_heart_gall_esophagus_seminal_uterus
|full_id=C2086_smooth_bladder_heart_gall_esophagus_seminal_uterus
|gostat_on_coexpression_clusters=GO:0045098!type III intermediate filament!0.00535727426246884!1674$GO:0005915!zonula adherens!0.00535727426246884!10580$GO:0007010!cytoskeleton organization and biogenesis!0.00749885925619792!10580;1674$GO:0043149!stress fiber formation!0.00749885925619792!10580$GO:0001725!stress fiber!0.00749885925619792!10580$GO:0032432!actin filament bundle!0.00749885925619792!10580$GO:0044430!cytoskeletal part!0.00749885925619792!10580;1674$GO:0048041!focal adhesion formation!0.00749885925619792!10580$GO:0005913!cell-cell adherens junction!0.00749885925619792!10580$GO:0030018!Z disc!0.00749885925619792!1674$GO:0042383!sarcolemma!0.00758779626979266!1674$GO:0031674!I band!0.00758779626979266!1674$GO:0051017!actin filament bundle formation!0.00765122132711095!10580$GO:0005626!insoluble fraction!0.00765122132711095!1674$GO:0005158!insulin receptor binding!0.00821194817254023!10580$GO:0005856!cytoskeleton!0.00856785393064033!10580;1674$GO:0015758!glucose transport!0.00856785393064033!10580$GO:0008645!hexose transport!0.00856785393064033!10580$GO:0008286!insulin receptor signaling pathway!0.00856785393064033!10580$GO:0015749!monosaccharide transport!0.00856785393064033!10580$GO:0006996!organelle organization and biogenesis!0.00873810035451232!10580;1674$GO:0005924!cell-substrate adherens junction!0.00886120895483628!10580$GO:0030055!cell-matrix junction!0.00886120895483628!10580$GO:0007015!actin filament organization!0.00886120895483628!10580$GO:0008016!regulation of heart contraction!0.00886120895483628!1674$GO:0045121!lipid raft!0.00886120895483628!10580$GO:0060047!heart contraction!0.00886120895483628!1674$GO:0003015!heart process!0.00886120895483628!1674$GO:0030017!sarcomere!0.00886120895483628!1674$GO:0030016!myofibril!0.00932488368221589!1674$GO:0005912!adherens junction!0.00932488368221589!10580$GO:0044449!contractile fiber part!0.0100363141022865!1674$GO:0043292!contractile fiber!0.0103803838974261!1674$GO:0005200!structural constituent of cytoskeleton!0.0129946289266619!1674$GO:0016323!basolateral plasma membrane!0.0129946289266619!10580$GO:0007160!cell-matrix adhesion!0.0140415253671652!10580$GO:0032403!protein complex binding!0.0140415253671652!10580$GO:0031589!cell-substrate adhesion!0.0140415253671652!10580$GO:0043296!apical junction complex!0.0140415253671652!10580$GO:0016327!apicolateral plasma membrane!0.0140415253671652!10580$GO:0008643!carbohydrate transport!0.0144805710846923!10580$GO:0043232!intracellular non-membrane-bound organelle!0.0156300524876296!10580;1674$GO:0043228!non-membrane-bound organelle!0.0156300524876296!10580;1674$GO:0016043!cellular component organization and biogenesis!0.0183714485940823!10580;1674$GO:0008015!blood circulation!0.0183714485940823!1674$GO:0003013!circulatory system process!0.0183714485940823!1674$GO:0003012!muscle system process!0.0183714485940823!1674$GO:0006936!muscle contraction!0.0183714485940823!1674$GO:0005911!intercellular junction!0.0188668525064153!10580$GO:0007169!transmembrane receptor protein tyrosine kinase signaling pathway!0.0224316669169304!10580$GO:0005886!plasma membrane!0.0225084027646801!10580;1674$GO:0005882!intermediate filament!0.0237728719017302!1674$GO:0045111!intermediate filament cytoskeleton!0.0237728719017302!1674$GO:0030036!actin cytoskeleton organization and biogenesis!0.0240114757722564!10580$GO:0044446!intracellular organelle part!0.0240114757722564!10580;1674$GO:0044422!organelle part!0.0240114757722564!10580;1674$GO:0030029!actin filament-based process!0.0243438934286215!10580$GO:0051239!regulation of multicellular organismal process!0.0254820419003628!1674$GO:0015629!actin cytoskeleton!0.0266688820400185!10580$GO:0007167!enzyme linked receptor protein signaling pathway!0.0266688820400185!10580$GO:0030054!cell junction!0.0374397760363107!10580$GO:0003779!actin binding!0.0376036765297134!10580
|id=C2086
|id=C2086
}}
}}

Revision as of 17:36, 18 May 2012


Full id: C2086_smooth_bladder_heart_gall_esophagus_seminal_uterus



Phase1 CAGE Peaks

Hg19::chr10:97197552..97197590,-p9@SORBS1
Hg19::chr2:220284774..220284780,+p10@DES
Hg19::chr2:220284788..220284812,+p2@DES
Hg19::chr2:220284844..220284855,+p8@DES


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:0045098type III intermediate filament0.00535727426246884
GO:0005915zonula adherens0.00535727426246884
GO:0007010cytoskeleton organization and biogenesis0.00749885925619792
GO:0043149stress fiber formation0.00749885925619792
GO:0001725stress fiber0.00749885925619792
GO:0032432actin filament bundle0.00749885925619792
GO:0044430cytoskeletal part0.00749885925619792
GO:0048041focal adhesion formation0.00749885925619792
GO:0005913cell-cell adherens junction0.00749885925619792
GO:0030018Z disc0.00749885925619792
GO:0042383sarcolemma0.00758779626979266
GO:0031674I band0.00758779626979266
GO:0051017actin filament bundle formation0.00765122132711095
GO:0005626insoluble fraction0.00765122132711095
GO:0005158insulin receptor binding0.00821194817254023
GO:0005856cytoskeleton0.00856785393064033
GO:0015758glucose transport0.00856785393064033
GO:0008645hexose transport0.00856785393064033
GO:0008286insulin receptor signaling pathway0.00856785393064033
GO:0015749monosaccharide transport0.00856785393064033
GO:0006996organelle organization and biogenesis0.00873810035451232
GO:0005924cell-substrate adherens junction0.00886120895483628
GO:0030055cell-matrix junction0.00886120895483628
GO:0007015actin filament organization0.00886120895483628
GO:0008016regulation of heart contraction0.00886120895483628
GO:0045121lipid raft0.00886120895483628
GO:0060047heart contraction0.00886120895483628
GO:0003015heart process0.00886120895483628
GO:0030017sarcomere0.00886120895483628
GO:0030016myofibril0.00932488368221589
GO:0005912adherens junction0.00932488368221589
GO:0044449contractile fiber part0.0100363141022865
GO:0043292contractile fiber0.0103803838974261
GO:0005200structural constituent of cytoskeleton0.0129946289266619
GO:0016323basolateral plasma membrane0.0129946289266619
GO:0007160cell-matrix adhesion0.0140415253671652
GO:0032403protein complex binding0.0140415253671652
GO:0031589cell-substrate adhesion0.0140415253671652
GO:0043296apical junction complex0.0140415253671652
GO:0016327apicolateral plasma membrane0.0140415253671652
GO:0008643carbohydrate transport0.0144805710846923
GO:0043232intracellular non-membrane-bound organelle0.0156300524876296
GO:0043228non-membrane-bound organelle0.0156300524876296
GO:0016043cellular component organization and biogenesis0.0183714485940823
GO:0008015blood circulation0.0183714485940823
GO:0003013circulatory system process0.0183714485940823
GO:0003012muscle system process0.0183714485940823
GO:0006936muscle contraction0.0183714485940823
GO:0005911intercellular junction0.0188668525064153
GO:0007169transmembrane receptor protein tyrosine kinase signaling pathway0.0224316669169304
GO:0005886plasma membrane0.0225084027646801
GO:0005882intermediate filament0.0237728719017302
GO:0045111intermediate filament cytoskeleton0.0237728719017302
GO:0030036actin cytoskeleton organization and biogenesis0.0240114757722564
GO:0044446intracellular organelle part0.0240114757722564
GO:0044422organelle part0.0240114757722564
GO:0030029actin filament-based process0.0243438934286215
GO:0051239regulation of multicellular organismal process0.0254820419003628
GO:0015629actin cytoskeleton0.0266688820400185
GO:0007167enzyme linked receptor protein signaling pathway0.0266688820400185
GO:0030054cell junction0.0374397760363107
GO:0003779actin binding0.0376036765297134



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.

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