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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C3859_CD14_Fibroblast_Preadipocyte_Smooth_leiomyoma_tenocyte_Myoblast
|full_id=C3859_CD14_Fibroblast_Preadipocyte_Smooth_leiomyoma_tenocyte_Myoblast
|gostat_on_coexpression_clusters=GO:0033116!ER-Golgi intermediate compartment membrane!0.0205762027448468!9554$GO:0050819!negative regulation of coagulation!0.0205762027448468!308$GO:0050818!regulation of coagulation!0.0205762027448468!308$GO:0055102!lipase inhibitor activity!0.0205762027448468!308$GO:0004859!phospholipase inhibitor activity!0.0205762027448468!308$GO:0006888!ER to Golgi vesicle-mediated transport!0.0332505298680399!9554$GO:0005793!ER-Golgi intermediate compartment!0.0332505298680399!9554$GO:0005544!calcium-dependent phospholipid binding!0.0365310003594502!308$GO:0048770!pigment granule!0.0405595081249357!9554$GO:0042470!melanosome!0.0405595081249357!9554$GO:0048193!Golgi vesicle transport!0.0405595081249357!9554$GO:0007596!blood coagulation!0.0405595081249357!308$GO:0050817!coagulation!0.0405595081249357!308$GO:0007599!hemostasis!0.0405595081249357!308$GO:0050878!regulation of body fluid levels!0.0442604929895272!308$GO:0042060!wound healing!0.0442604929895272!308
|id=C3859
|id=C3859
}}
}}

Revision as of 17:39, 18 May 2012


Full id: C3859_CD14_Fibroblast_Preadipocyte_Smooth_leiomyoma_tenocyte_Myoblast



Phase1 CAGE Peaks

Hg19::chr1:145096387..145096477,+p1@SEC22B
Hg19::chr1:145116327..145116343,+p@chr1:145116327..145116343
+
Hg19::chr4:122618095..122618161,-p1@ANXA5


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:0033116ER-Golgi intermediate compartment membrane0.0205762027448468
GO:0050819negative regulation of coagulation0.0205762027448468
GO:0050818regulation of coagulation0.0205762027448468
GO:0055102lipase inhibitor activity0.0205762027448468
GO:0004859phospholipase inhibitor activity0.0205762027448468
GO:0006888ER to Golgi vesicle-mediated transport0.0332505298680399
GO:0005793ER-Golgi intermediate compartment0.0332505298680399
GO:0005544calcium-dependent phospholipid binding0.0365310003594502
GO:0048770pigment granule0.0405595081249357
GO:0042470melanosome0.0405595081249357
GO:0048193Golgi vesicle transport0.0405595081249357
GO:0007596blood coagulation0.0405595081249357
GO:0050817coagulation0.0405595081249357
GO:0007599hemostasis0.0405595081249357
GO:0050878regulation of body fluid levels0.0442604929895272
GO:0042060wound healing0.0442604929895272



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.