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{{Coexpression_clusters
{{Coexpression_clusters
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|full_id=C1741_Fibroblast_Synoviocyte_sacrococcigeal_Preadipocyte_tenocyte_Adipocyte_mesenchymal
|full_id=C1741_Fibroblast_Synoviocyte_sacrococcigeal_Preadipocyte_tenocyte_Adipocyte_mesenchymal
|id=C1741
|id=C1741

Revision as of 14:20, 12 September 2012


Full id: C1741_Fibroblast_Synoviocyte_sacrococcigeal_Preadipocyte_tenocyte_Adipocyte_mesenchymal



Phase1 CAGE Peaks

Hg19::chr15:49715431..49715448,+p2@FGF7
Hg19::chr15:49715449..49715464,+p1@FGF7
Hg19::chr15:49716561..49716579,+p9@FGF7
Hg19::chr15:49716638..49716654,+p8@FGF7
Hg19::chr15:49716675..49716698,+p10@FGF7


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

No GOStat results

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>

Uber Anatomy
Ontology termp-valuen
somite1.56e-2083
paraxial mesoderm1.56e-2083
presomitic mesoderm1.56e-2083
presumptive segmental plate1.56e-2083
trunk paraxial mesoderm1.56e-2083
presumptive paraxial mesoderm1.56e-2083
dermomyotome5.18e-1970
muscle tissue1.05e-1763
musculature1.05e-1763
musculature of body1.05e-1763
skeletal muscle tissue5.12e-1761
striated muscle tissue5.12e-1761
myotome5.12e-1761
multilaminar epithelium6.31e-1582
organism subdivision1.70e-12365
trunk mesenchyme1.86e-11143
surface structure6.35e-1195
integument1.41e-1045
integumental system1.41e-1045
trunk1.41e-09216
skin of body1.11e-0840
adult organism2.03e-08115
adipose tissue3.58e-0814
primary circulatory organ4.38e-0827
heart1.59e-0724
primitive heart tube1.59e-0724
primary heart field1.59e-0724
anterior lateral plate mesoderm1.59e-0724
heart tube1.59e-0724
heart primordium1.59e-0724
cardiac mesoderm1.59e-0724
cardiogenic plate1.59e-0724
heart rudiment1.59e-0724
multi-tissue structure2.17e-07347
multi-cellular organism2.24e-07659
splanchnic layer of lateral plate mesoderm2.87e-0784
smooth muscle tissue4.00e-0715
Disease
Ontology termp-valuen
ovarian cancer3.52e-0814


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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