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Coexpression cluster:C1209: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002385!9.34e-15!64;UBERON:0001015!9.34e-15!64;UBERON:0000383!9.34e-15!64;UBERON:0001134!1.01e-13!62;UBERON:0002036!1.01e-13!62;UBERON:0003082!1.01e-13!62;UBERON:0002329!5.69e-13!71;UBERON:0003059!5.69e-13!71;UBERON:0007282!5.69e-13!71;UBERON:0004290!5.69e-13!71;UBERON:0009618!5.69e-13!71;UBERON:0003077!1.34e-12!72;UBERON:0007285!1.34e-12!72;UBERON:0007524!3.07e-12!73;UBERON:0000486!7.07e-11!83;UBERON:0007503!1.33e-10!78;UBERON:0005256!8.01e-10!122;UBERON:0007100!1.59e-09!27;UBERON:0000926!2.06e-08!315;UBERON:0004120!2.06e-08!315;UBERON:0006603!2.06e-08!315;UBERON:0000948!3.36e-08!24;UBERON:0005498!3.36e-08!24;UBERON:0004140!3.36e-08!24;UBERON:0009881!3.36e-08!24;UBERON:0004141!3.36e-08!24;UBERON:0003084!3.36e-08!24;UBERON:0007005!3.36e-08!24;UBERON:0004139!3.36e-08!24;UBERON:0004291!3.36e-08!24;UBERON:0002100!3.76e-08!199;UBERON:0003104!9.04e-08!160;UBERON:0009142!9.04e-08!160;UBERON:0003688!1.06e-07!6;UBERON:0002358!1.06e-07!6;UBERON:0003684!1.06e-07!6;UBERON:0001178!1.06e-07!6;UBERON:0001013!1.48e-07!14;UBERON:0000992!1.77e-07!13;UBERON:0005156!2.55e-07!59;UBERON:0000990!2.55e-07!59;UBERON:0002199!3.39e-07!46;UBERON:0002416!3.39e-07!46
|ontology_enrichment_uberon=UBERON:0002385!9.34e-15!64;UBERON:0001015!9.34e-15!64;UBERON:0000383!9.34e-15!64;UBERON:0001134!1.01e-13!62;UBERON:0002036!1.01e-13!62;UBERON:0003082!1.01e-13!62;UBERON:0002329!5.69e-13!71;UBERON:0003059!5.69e-13!71;UBERON:0007282!5.69e-13!71;UBERON:0004290!5.69e-13!71;UBERON:0009618!5.69e-13!71;UBERON:0003077!1.34e-12!72;UBERON:0007285!1.34e-12!72;UBERON:0007524!3.07e-12!73;UBERON:0000486!7.07e-11!83;UBERON:0007503!1.33e-10!78;UBERON:0005256!8.01e-10!122;UBERON:0007100!1.59e-09!27;UBERON:0000926!2.06e-08!315;UBERON:0004120!2.06e-08!315;UBERON:0006603!2.06e-08!315;UBERON:0000948!3.36e-08!24;UBERON:0005498!3.36e-08!24;UBERON:0004140!3.36e-08!24;UBERON:0009881!3.36e-08!24;UBERON:0004141!3.36e-08!24;UBERON:0003084!3.36e-08!24;UBERON:0007005!3.36e-08!24;UBERON:0004139!3.36e-08!24;UBERON:0004291!3.36e-08!24;UBERON:0002100!3.76e-08!199;UBERON:0003104!9.04e-08!160;UBERON:0009142!9.04e-08!160;UBERON:0003688!1.06e-07!6;UBERON:0002358!1.06e-07!6;UBERON:0003684!1.06e-07!6;UBERON:0001178!1.06e-07!6;UBERON:0001013!1.48e-07!14;UBERON:0000992!1.77e-07!13;UBERON:0005156!2.55e-07!59;UBERON:0000990!2.55e-07!59;UBERON:0002199!3.39e-07!46;UBERON:0002416!3.39e-07!46
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}}
}}

Revision as of 14:45, 26 November 2012


Full id: C1209_Cardiac_mesenchymal_Adipocyte_sacrococcigeal_Mesothelial_Preadipocyte_Sertoli



Phase1 CAGE Peaks

Hg19::chr15:49716212..49716244,+p7@FGF7
Hg19::chr15:49716289..49716340,+p6@FGF7
Hg19::chr15:49716369..49716378,+p14@FGF7
Hg19::chr15:49716443..49716472,+p5@FGF7
Hg19::chr15:49716475..49716504,+p4@FGF7
Hg19::chr15:49716599..49716621,+p11@FGF7
Hg19::chr15:49716703..49716720,+p3@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>

Cell Type
Ontology termp-valuen
fibroblast2.66e-1576
muscle precursor cell7.61e-1358
myoblast7.61e-1358
multi-potent skeletal muscle stem cell7.61e-1358
muscle cell1.32e-1155
preadipocyte9.25e-1112
contractile cell4.46e-1059
electrically responsive cell2.12e-0961
electrically active cell2.12e-0961
skin fibroblast8.26e-0923
fat cell7.51e-0815
smooth muscle cell1.61e-0743
smooth muscle myoblast1.61e-0743
multi fate stem cell5.64e-07427
Uber Anatomy
Ontology termp-valuen
muscle tissue9.34e-1564
musculature9.34e-1564
musculature of body9.34e-1564
skeletal muscle tissue1.01e-1362
striated muscle tissue1.01e-1362
myotome1.01e-1362
somite5.69e-1371
presomitic mesoderm5.69e-1371
presumptive segmental plate5.69e-1371
dermomyotome5.69e-1371
trunk paraxial mesoderm5.69e-1371
paraxial mesoderm1.34e-1272
presumptive paraxial mesoderm1.34e-1272
dense mesenchyme tissue3.07e-1273
multilaminar epithelium7.07e-1183
epithelial vesicle1.33e-1078
trunk mesenchyme8.01e-10122
primary circulatory organ1.59e-0927
mesoderm2.06e-08315
mesoderm-derived structure2.06e-08315
presumptive mesoderm2.06e-08315
heart3.36e-0824
primitive heart tube3.36e-0824
primary heart field3.36e-0824
anterior lateral plate mesoderm3.36e-0824
heart tube3.36e-0824
heart primordium3.36e-0824
cardiac mesoderm3.36e-0824
cardiogenic plate3.36e-0824
heart rudiment3.36e-0824
trunk3.76e-08199
mesenchyme9.04e-08160
entire embryonic mesenchyme9.04e-08160
omentum1.06e-076
peritoneum1.06e-076
abdominal cavity1.06e-076
visceral peritoneum1.06e-076
adipose tissue1.48e-0714
female gonad1.77e-0713
reproductive structure2.55e-0759
reproductive system2.55e-0759
integument3.39e-0746
integumental system3.39e-0746
Disease
Ontology termp-valuen
ovarian cancer7.14e-1214


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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