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|ontology_enrichment_disease=
|ontology_enrichment_disease=
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|ontology_enrichment_uberon=UBERON:0000914!2.77e-11!83;UBERON:0002329!2.77e-11!83;UBERON:0003077!2.77e-11!83;UBERON:0003059!2.77e-11!83;UBERON:0007282!2.77e-11!83;UBERON:0009618!2.77e-11!83;UBERON:0007285!2.77e-11!83;UBERON:0004290!4.29e-10!70;UBERON:0000468!8.63e-10!659;UBERON:0002385!1.76e-09!63;UBERON:0001015!1.76e-09!63;UBERON:0000383!1.76e-09!63;UBERON:0001134!8.20e-09!61;UBERON:0002036!8.20e-09!61;UBERON:0003082!8.20e-09!61;UBERON:0003104!1.01e-08!238;UBERON:0009142!1.01e-08!238;UBERON:0004923!1.68e-08!57;UBERON:0000481!1.73e-08!347;UBERON:0000486!2.06e-08!82;UBERON:0005256!7.22e-08!143;UBERON:0002199!2.15e-07!45;UBERON:0002416!2.15e-07!45;UBERON:0007100!3.18e-07!27;UBERON:0000948!8.38e-07!24;UBERON:0005498!8.38e-07!24;UBERON:0004140!8.38e-07!24;UBERON:0009881!8.38e-07!24;UBERON:0004141!8.38e-07!24;UBERON:0003084!8.38e-07!24;UBERON:0007005!8.38e-07!24;UBERON:0004139!8.38e-07!24;UBERON:0004291!8.38e-07!24;UBERON:0003102!8.42e-07!95
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}}
}}

Revision as of 17:12, 8 August 2012


Full id: C1371_tenocyte_Chondrocyte_placenta_Fibroblast_skin_mesenchymal_chorionic



Phase1 CAGE Peaks

Hg19::chr12:91498004..91498039,-p@chr12:91498004..91498039
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Hg19::chr12:91498048..91498066,-p@chr12:91498048..91498066
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Hg19::chr12:91502193..91502216,-p@chr12:91502193..91502216
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Hg19::chr12:91502347..91502368,-p5@LUM
Hg19::chr12:91502618..91502636,-p7@LUM
Hg19::chr12:91505206..91505228,-p2@LUM


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>

Cell Type
Ontology termp-valuen
non-terminally differentiated cell3.60e-22180
fibroblast6.92e-1575
skin fibroblast3.31e-0923
muscle precursor cell2.94e-0857
myoblast2.94e-0857
multi-potent skeletal muscle stem cell2.94e-0857
muscle cell1.18e-0754
fat cell5.40e-0715
stromal cell8.27e-0727
Uber Anatomy
Ontology termp-valuen
somite2.77e-1183
paraxial mesoderm2.77e-1183
presomitic mesoderm2.77e-1183
presumptive segmental plate2.77e-1183
trunk paraxial mesoderm2.77e-1183
presumptive paraxial mesoderm2.77e-1183
dermomyotome4.29e-1070
multi-cellular organism8.63e-10659
muscle tissue1.76e-0963
musculature1.76e-0963
musculature of body1.76e-0963
skeletal muscle tissue8.20e-0961
striated muscle tissue8.20e-0961
myotome8.20e-0961
mesenchyme1.01e-08238
entire embryonic mesenchyme1.01e-08238
organ component layer1.68e-0857
multi-tissue structure1.73e-08347
multilaminar epithelium2.06e-0882
trunk mesenchyme7.22e-08143
integument2.15e-0745
integumental system2.15e-0745
primary circulatory organ3.18e-0727
heart8.38e-0724
primitive heart tube8.38e-0724
primary heart field8.38e-0724
anterior lateral plate mesoderm8.38e-0724
heart tube8.38e-0724
heart primordium8.38e-0724
cardiac mesoderm8.38e-0724
cardiogenic plate8.38e-0724
heart rudiment8.38e-0724
surface structure8.42e-0795


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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