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Coexpression cluster:C2614: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000914!4.83e-19!83;UBERON:0002329!4.83e-19!83;UBERON:0003077!4.83e-19!83;UBERON:0003059!4.83e-19!83;UBERON:0007282!4.83e-19!83;UBERON:0009618!4.83e-19!83;UBERON:0007285!4.83e-19!83;UBERON:0000475!3.46e-18!365;UBERON:0004290!9.84e-18!70;UBERON:0001134!4.20e-17!61;UBERON:0002036!4.20e-17!61;UBERON:0003082!4.20e-17!61;UBERON:0002385!1.89e-16!63;UBERON:0001015!1.89e-16!63;UBERON:0000383!1.89e-16!63;UBERON:0005256!3.36e-15!143;UBERON:0000486!2.08e-14!82;UBERON:0000481!3.02e-13!347;UBERON:0000119!1.34e-11!312;UBERON:0000483!5.44e-11!309;UBERON:0003102!7.35e-10!95;UBERON:0001444!2.05e-09!48;UBERON:0002049!4.53e-09!79;UBERON:0007798!4.53e-09!79;UBERON:0002100!8.14e-09!216;UBERON:0000477!1.82e-08!286;UBERON:0001456!8.55e-08!21;UBERON:0002200!1.16e-07!11;UBERON:0006876!1.16e-07!11;UBERON:0003104!1.22e-07!238;UBERON:0009142!1.22e-07!238;UBERON:0001801!5.09e-07!14;UBERON:0000490!5.91e-07!138;UBERON:0005085!5.94e-07!29;UBERON:0000019!7.74e-07!19;UBERON:0000047!7.74e-07!19;UBERON:0004088!7.74e-07!19;UBERON:0003072!7.74e-07!19;UBERON:0003071!7.74e-07!19;UBERON:0004128!7.74e-07!19;UBERON:0004535!7.91e-07!110;UBERON:0000970!9.03e-07!20
|ontology_enrichment_uberon=UBERON:0000914!4.83e-19!83;UBERON:0002329!4.83e-19!83;UBERON:0003077!4.83e-19!83;UBERON:0003059!4.83e-19!83;UBERON:0007282!4.83e-19!83;UBERON:0009618!4.83e-19!83;UBERON:0007285!4.83e-19!83;UBERON:0000475!3.46e-18!365;UBERON:0004290!9.84e-18!70;UBERON:0001134!4.20e-17!61;UBERON:0002036!4.20e-17!61;UBERON:0003082!4.20e-17!61;UBERON:0002385!1.89e-16!63;UBERON:0001015!1.89e-16!63;UBERON:0000383!1.89e-16!63;UBERON:0005256!3.36e-15!143;UBERON:0000486!2.08e-14!82;UBERON:0000481!3.02e-13!347;UBERON:0000119!1.34e-11!312;UBERON:0000483!5.44e-11!309;UBERON:0003102!7.35e-10!95;UBERON:0001444!2.05e-09!48;UBERON:0002049!4.53e-09!79;UBERON:0007798!4.53e-09!79;UBERON:0002100!8.14e-09!216;UBERON:0000477!1.82e-08!286;UBERON:0001456!8.55e-08!21;UBERON:0002200!1.16e-07!11;UBERON:0006876!1.16e-07!11;UBERON:0003104!1.22e-07!238;UBERON:0009142!1.22e-07!238;UBERON:0001801!5.09e-07!14;UBERON:0000490!5.91e-07!138;UBERON:0005085!5.94e-07!29;UBERON:0000019!7.74e-07!19;UBERON:0000047!7.74e-07!19;UBERON:0004088!7.74e-07!19;UBERON:0003072!7.74e-07!19;UBERON:0003071!7.74e-07!19;UBERON:0004128!7.74e-07!19;UBERON:0004535!7.91e-07!110;UBERON:0000970!9.03e-07!20
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}}
}}

Revision as of 18:27, 8 August 2012


Full id: C2614_mesenchymal_leiomyoma_mesothelioma_Anulus_Nucleus_Smooth_epithelioid



Phase1 CAGE Peaks

Hg19::chr20:34025900..34025919,-p3@GDF5
Hg19::chr20:34025933..34025963,-p2@GDF5
Hg19::chr20:34025999..34026045,-p1@GDF5
Hg19::chr20:34026051..34026075,-p4@GDF5


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
somite4.83e-1983
paraxial mesoderm4.83e-1983
presomitic mesoderm4.83e-1983
presumptive segmental plate4.83e-1983
trunk paraxial mesoderm4.83e-1983
presumptive paraxial mesoderm4.83e-1983
organism subdivision3.46e-18365
dermomyotome9.84e-1870
skeletal muscle tissue4.20e-1761
striated muscle tissue4.20e-1761
myotome4.20e-1761
muscle tissue1.89e-1663
musculature1.89e-1663
musculature of body1.89e-1663
trunk mesenchyme3.36e-15143
multilaminar epithelium2.08e-1482
multi-tissue structure3.02e-13347
cell layer1.34e-11312
epithelium5.44e-11309
surface structure7.35e-1095
subdivision of head2.05e-0948
vasculature4.53e-0979
vascular system4.53e-0979
trunk8.14e-09216
anatomical cluster1.82e-08286
face8.55e-0821
vasculature of head1.16e-0711
vasculature of organ1.16e-0711
mesenchyme1.22e-07238
entire embryonic mesenchyme1.22e-07238
anterior segment of eyeball5.09e-0714
unilaminar epithelium5.91e-07138
ectodermal placode5.94e-0729
camera-type eye7.74e-0719
simple eye7.74e-0719
ocular region7.74e-0719
optic cup7.74e-0719
eye primordium7.74e-0719
optic vesicle7.74e-0719
cardiovascular system7.91e-07110
eye9.03e-0720


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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