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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C1636_Mesenchymal_Alveolar_Placental_Smooth_Fibroblast_Bronchial_Hair
|full_id=C1636_Mesenchymal_Alveolar_Placental_Smooth_Fibroblast_Bronchial_Hair
|gostat_on_coexpression_clusters=GO:0032311!angiogenin-PRI complex!0.0126567374393484!6050$GO:0004045!aminoacyl-tRNA hydrolase activity!0.0126567374393484!138428$GO:0008428!ribonuclease inhibitor activity!0.0126567374393484!6050$GO:0030128!clathrin coat of endocytic vesicle!0.0151827206402137!1175$GO:0030669!clathrin-coated endocytic vesicle membrane!0.0151827206402137!1175$GO:0030122!AP-2 adaptor complex!0.0151827206402137!1175$GO:0030666!endocytic vesicle membrane!0.0151827206402137!1175$GO:0045334!clathrin-coated endocytic vesicle!0.0151827206402137!1175$GO:0006901!vesicle coating!0.0151827206402137!1175$GO:0048268!clathrin cage assembly!0.0151827206402137!1175$GO:0006900!membrane budding!0.0155268682942639!1175$GO:0030132!clathrin coat of coated pit!0.0205538827115248!1175$GO:0016050!vesicle organization and biogenesis!0.023347032623047!1175$GO:0030125!clathrin vesicle coat!0.0272573686613283!1175$GO:0030139!endocytic vesicle!0.0272573686613283!1175$GO:0030665!clathrin coated vesicle membrane!0.0272573686613283!1175$GO:0006402!mRNA catabolic process!0.0323349158877492!6050$GO:0030100!regulation of endocytosis!0.0357932574808114!1175$GO:0045765!regulation of angiogenesis!0.037889819044312!6050$GO:0005905!coated pit!0.0407195667967789!1175$GO:0006401!RNA catabolic process!0.040882474854515!6050$GO:0030120!vesicle coat!0.040882474854515!1175$GO:0030662!coated vesicle membrane!0.040882474854515!1175$GO:0030131!clathrin adaptor complex!0.040882474854515!1175$GO:0030119!AP-type membrane coat adaptor complex!0.040882474854515!1175$GO:0030118!clathrin coat!0.0480117110439507!1175
|id=C1636
|id=C1636
}}
}}

Revision as of 17:35, 18 May 2012


Full id: C1636_Mesenchymal_Alveolar_Placental_Smooth_Fibroblast_Bronchial_Hair



Phase1 CAGE Peaks

Hg19::chr11:507184..507269,-p1@RNH1
Hg19::chr17:1945301..1945344,+p1@OVCA2
Hg19::chr19:47354082..47354132,-p1@AP2S1
Hg19::chr22:50963976..50964055,-p1@SCO2
Hg19::chr9:130477912..130477961,-p1@PTRH1


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:0032311angiogenin-PRI complex0.0126567374393484
GO:0004045aminoacyl-tRNA hydrolase activity0.0126567374393484
GO:0008428ribonuclease inhibitor activity0.0126567374393484
GO:0030128clathrin coat of endocytic vesicle0.0151827206402137
GO:0030669clathrin-coated endocytic vesicle membrane0.0151827206402137
GO:0030122AP-2 adaptor complex0.0151827206402137
GO:0030666endocytic vesicle membrane0.0151827206402137
GO:0045334clathrin-coated endocytic vesicle0.0151827206402137
GO:0006901vesicle coating0.0151827206402137
GO:0048268clathrin cage assembly0.0151827206402137
GO:0006900membrane budding0.0155268682942639
GO:0030132clathrin coat of coated pit0.0205538827115248
GO:0016050vesicle organization and biogenesis0.023347032623047
GO:0030125clathrin vesicle coat0.0272573686613283
GO:0030139endocytic vesicle0.0272573686613283
GO:0030665clathrin coated vesicle membrane0.0272573686613283
GO:0006402mRNA catabolic process0.0323349158877492
GO:0030100regulation of endocytosis0.0357932574808114
GO:0045765regulation of angiogenesis0.037889819044312
GO:0005905coated pit0.0407195667967789
GO:0006401RNA catabolic process0.040882474854515
GO:0030120vesicle coat0.040882474854515
GO:0030662coated vesicle membrane0.040882474854515
GO:0030131clathrin adaptor complex0.040882474854515
GO:0030119AP-type membrane coat adaptor complex0.040882474854515
GO:0030118clathrin coat0.0480117110439507



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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