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Coexpression cluster:C1051: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002385!1.49e-14!64;UBERON:0001015!1.49e-14!64;UBERON:0000383!1.49e-14!64;UBERON:0007524!3.06e-14!73;UBERON:0002329!4.03e-14!71;UBERON:0003059!4.03e-14!71;UBERON:0007282!4.03e-14!71;UBERON:0004290!4.03e-14!71;UBERON:0009618!4.03e-14!71;UBERON:0001134!5.16e-14!62;UBERON:0002036!5.16e-14!62;UBERON:0003082!5.16e-14!62;UBERON:0003077!1.04e-13!72;UBERON:0007285!1.04e-13!72;UBERON:0000486!1.49e-11!83;UBERON:0007503!1.71e-11!78;UBERON:0003104!3.29e-11!160;UBERON:0009142!3.29e-11!160;UBERON:0005256!4.50e-09!122;UBERON:0000926!1.99e-08!315;UBERON:0004120!1.99e-08!315;UBERON:0006603!1.99e-08!315;UBERON:0001013!2.29e-08!14;UBERON:0002384!1.77e-07!371;UBERON:0000478!2.70e-07!24;UBERON:0000948!3.12e-07!24;UBERON:0005498!3.12e-07!24;UBERON:0004140!3.12e-07!24;UBERON:0009881!3.12e-07!24;UBERON:0004141!3.12e-07!24;UBERON:0003084!3.12e-07!24;UBERON:0007005!3.12e-07!24;UBERON:0004139!3.12e-07!24;UBERON:0004291!3.12e-07!24;UBERON:0002199!4.39e-07!46;UBERON:0002416!4.39e-07!46
|ontology_enrichment_uberon=UBERON:0002385!1.49e-14!64;UBERON:0001015!1.49e-14!64;UBERON:0000383!1.49e-14!64;UBERON:0007524!3.06e-14!73;UBERON:0002329!4.03e-14!71;UBERON:0003059!4.03e-14!71;UBERON:0007282!4.03e-14!71;UBERON:0004290!4.03e-14!71;UBERON:0009618!4.03e-14!71;UBERON:0001134!5.16e-14!62;UBERON:0002036!5.16e-14!62;UBERON:0003082!5.16e-14!62;UBERON:0003077!1.04e-13!72;UBERON:0007285!1.04e-13!72;UBERON:0000486!1.49e-11!83;UBERON:0007503!1.71e-11!78;UBERON:0003104!3.29e-11!160;UBERON:0009142!3.29e-11!160;UBERON:0005256!4.50e-09!122;UBERON:0000926!1.99e-08!315;UBERON:0004120!1.99e-08!315;UBERON:0006603!1.99e-08!315;UBERON:0001013!2.29e-08!14;UBERON:0002384!1.77e-07!371;UBERON:0000478!2.70e-07!24;UBERON:0000948!3.12e-07!24;UBERON:0005498!3.12e-07!24;UBERON:0004140!3.12e-07!24;UBERON:0009881!3.12e-07!24;UBERON:0004141!3.12e-07!24;UBERON:0003084!3.12e-07!24;UBERON:0007005!3.12e-07!24;UBERON:0004139!3.12e-07!24;UBERON:0004291!3.12e-07!24;UBERON:0002199!4.39e-07!46;UBERON:0002416!4.39e-07!46
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}}
}}

Revision as of 14:39, 26 November 2012


Full id: C1051_umbilical_tenocyte_Mesenchymal_mesenchymal_Olfactory_Adipocyte_Synoviocyte



Phase1 CAGE Peaks

Hg19::chr17:48261691..48261699,-p@chr17:48261691..48261699
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Hg19::chr17:48262330..48262350,+p5@AB032018
Hg19::chr2:189859488..189859525,-p@chr2:189859488..189859525
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Hg19::chr2:189859546..189859562,-p@chr2:189859546..189859562
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Hg19::chr2:189861210..189861232,-p@chr2:189861210..189861232
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Hg19::chr2:189861914..189861937,-p@chr2:189861914..189861937
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Hg19::chr2:189867707..189867750,-p@chr2:189867707..189867750
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Hg19::chr2:189871161..189871181,-p@chr2:189871161..189871181
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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
muscle tissue1.49e-1464
musculature1.49e-1464
musculature of body1.49e-1464
dense mesenchyme tissue3.06e-1473
somite4.03e-1471
presomitic mesoderm4.03e-1471
presumptive segmental plate4.03e-1471
dermomyotome4.03e-1471
trunk paraxial mesoderm4.03e-1471
skeletal muscle tissue5.16e-1462
striated muscle tissue5.16e-1462
myotome5.16e-1462
paraxial mesoderm1.04e-1372
presumptive paraxial mesoderm1.04e-1372
multilaminar epithelium1.49e-1183
epithelial vesicle1.71e-1178
mesenchyme3.29e-11160
entire embryonic mesenchyme3.29e-11160
trunk mesenchyme4.50e-09122
mesoderm1.99e-08315
mesoderm-derived structure1.99e-08315
presumptive mesoderm1.99e-08315
adipose tissue2.29e-0814
connective tissue1.77e-07371
extraembryonic structure2.70e-0724
heart3.12e-0724
primitive heart tube3.12e-0724
primary heart field3.12e-0724
anterior lateral plate mesoderm3.12e-0724
heart tube3.12e-0724
heart primordium3.12e-0724
cardiac mesoderm3.12e-0724
cardiogenic plate3.12e-0724
heart rudiment3.12e-0724
integument4.39e-0746
integumental system4.39e-0746


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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