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{{Coexpression_clusters
{{Coexpression_clusters
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|full_id=C3512_Osteoblast_Hair_tenocyte_Smooth_leiomyoma_Olfactory_Synoviocyte
|full_id=C3512_Osteoblast_Hair_tenocyte_Smooth_leiomyoma_Olfactory_Synoviocyte
|id=C3512
|id=C3512

Revision as of 16:27, 12 September 2012


Full id: C3512_Osteoblast_Hair_tenocyte_Smooth_leiomyoma_Olfactory_Synoviocyte



Phase1 CAGE Peaks

Hg19::chr15:74220039..74220089,+p@chr15:74220039..74220089
+
Hg19::chr15:74238792..74238813,+p@chr15:74238792..74238813
+
Hg19::chr15:74238829..74238853,+p@chr15:74238829..74238853
+


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><br>


Uber Anatomy
Ontology termp-valuen
somite5.31e-2383
paraxial mesoderm5.31e-2383
presomitic mesoderm5.31e-2383
presumptive segmental plate5.31e-2383
trunk paraxial mesoderm5.31e-2383
presumptive paraxial mesoderm5.31e-2383
dermomyotome6.27e-2370
multilaminar epithelium9.85e-2182
muscle tissue9.87e-2163
musculature9.87e-2163
musculature of body9.87e-2163
skeletal muscle tissue1.48e-2061
striated muscle tissue1.48e-2061
myotome1.48e-2061
trunk mesenchyme9.86e-15143
organism subdivision2.21e-11365
artery5.39e-1142
arterial blood vessel5.39e-1142
arterial system5.39e-1142
trunk2.82e-10216
splanchnic layer of lateral plate mesoderm6.00e-1084
systemic artery1.06e-0933
systemic arterial system1.06e-0933
surface structure1.20e-0995
integument2.45e-0945
integumental system2.45e-0945
vasculature1.47e-0779
vascular system1.47e-0779
adipose tissue1.60e-0714
unilaminar epithelium6.67e-07138
skin of body8.03e-0740
circulatory system9.71e-07113


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.