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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C2076_Melanocyte_corpus_brain_occipital_temporal_postcentral_pons
|full_id=C2076_Melanocyte_corpus_brain_occipital_temporal_postcentral_pons
|gostat_on_coexpression_clusters=GO:0030297!transmembrane receptor protein tyrosine kinase activator activity!0.00565129725365418!10718$GO:0030971!receptor tyrosine kinase binding!0.00565129725365418!10718$GO:0030296!protein tyrosine kinase activator activity!0.00565129725365418!10718$GO:0030295!protein kinase activator activity!0.00791088449005495!10718$GO:0030879!mammary gland development!0.00791088449005495!10718$GO:0019209!kinase activator activity!0.00847544856163342!10718$GO:0048732!gland development!0.0185576153148636!10718$GO:0019887!protein kinase regulator activity!0.0370325943749413!10718$GO:0019207!kinase regulator activity!0.0382378355329935!10718$GO:0001558!regulation of cell growth!0.0446438476068774!10718$GO:0016049!cell growth!0.0446438476068774!10718$GO:0040008!regulation of growth!0.0446438476068774!10718$GO:0008361!regulation of cell size!0.0446438476068774!10718$GO:0009790!embryonic development!0.0472706531134139!10718$GO:0008083!growth factor activity!0.0474859976685569!10718
|id=C2076
|id=C2076
}}
}}

Revision as of 17:36, 18 May 2012


Full id: C2076_Melanocyte_corpus_brain_occipital_temporal_postcentral_pons



Phase1 CAGE Peaks

Hg19::chr10:83635613..83635633,+p3@NRG3
Hg19::chr8:22005612..22005623,-p@chr8:22005612..22005623
-
Hg19::chr8:22014298..22014326,-p1@LGI3
Hg19::chr8:22014339..22014342,-p4@LGI3


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:0030297transmembrane receptor protein tyrosine kinase activator activity0.00565129725365418
GO:0030971receptor tyrosine kinase binding0.00565129725365418
GO:0030296protein tyrosine kinase activator activity0.00565129725365418
GO:0030295protein kinase activator activity0.00791088449005495
GO:0030879mammary gland development0.00791088449005495
GO:0019209kinase activator activity0.00847544856163342
GO:0048732gland development0.0185576153148636
GO:0019887protein kinase regulator activity0.0370325943749413
GO:0019207kinase regulator activity0.0382378355329935
GO:0001558regulation of cell growth0.0446438476068774
GO:0016049cell growth0.0446438476068774
GO:0040008regulation of growth0.0446438476068774
GO:0008361regulation of cell size0.0446438476068774
GO:0009790embryonic development0.0472706531134139
GO:0008083growth factor activity0.0474859976685569



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.