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|ontology_enrichment_disease=
|ontology_enrichment_disease=
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}}
}}

Revision as of 19:41, 8 August 2012


Full id: C4043_Mesenchymal_Synoviocyte_Adipocyte_mature_tenocyte_Smooth_Multipotent



Phase1 CAGE Peaks

Hg19::chr20:44462430..44462476,+p1@SNX21
Hg19::chr20:44462481..44462497,+p4@SNX21
Hg19::chr20:44462801..44462825,+p2@SNX21


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
organism subdivision2.39e-25365
multi-cellular organism2.63e-18659
multi-tissue structure3.98e-14347
anatomical system5.19e-14625
somite6.59e-1483
paraxial mesoderm6.59e-1483
presomitic mesoderm6.59e-1483
presumptive segmental plate6.59e-1483
trunk paraxial mesoderm6.59e-1483
presumptive paraxial mesoderm6.59e-1483
anatomical group6.90e-14626
trunk7.02e-14216
dermomyotome3.16e-1370
epithelium8.10e-13309
cell layer1.32e-12312
trunk mesenchyme3.74e-12143
muscle tissue1.44e-1163
musculature1.44e-1163
musculature of body1.44e-1163
anatomical conduit1.92e-11241
skeletal muscle tissue2.06e-1161
striated muscle tissue2.06e-1161
myotome2.06e-1161
multilaminar epithelium2.29e-1182
embryo4.37e-10612
tube6.74e-10194
embryonic structure9.90e-10605
developing anatomical structure9.90e-10605
anatomical cluster1.13e-09286
germ layer1.89e-09604
embryonic tissue1.89e-09604
presumptive structure1.89e-09604
epiblast (generic)1.89e-09604
surface structure3.95e-0995
adult organism1.29e-08115
splanchnic layer of lateral plate mesoderm2.48e-0884
organ2.83e-08511
adipose tissue8.21e-0814
mesenchyme1.09e-07238
entire embryonic mesenchyme1.09e-07238
systemic artery5.45e-0733
systemic arterial system5.45e-0733
epithelial tube7.56e-07118


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)

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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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