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Coexpression cluster:C2553: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0007023!9.02e-32!114;UBERON:0002619!5.26e-15!22;UBERON:0001950!4.79e-13!20;UBERON:0000956!1.23e-12!25;UBERON:0000203!1.23e-12!25;UBERON:0001893!1.07e-11!34;UBERON:0001869!1.49e-11!32;UBERON:0002791!4.17e-10!32;UBERON:0002780!9.86e-10!41;UBERON:0001890!9.86e-10!41;UBERON:0003080!9.86e-10!41;UBERON:0006240!9.86e-10!41;UBERON:0003528!3.21e-09!34;UBERON:0002020!3.21e-09!34;UBERON:0000200!1.38e-08!6;UBERON:0004457!1.16e-07!12;UBERON:0000042!1.16e-07!12;UBERON:0004458!2.72e-07!49
|ontology_enrichment_uberon=UBERON:0007023!9.02e-32!114;UBERON:0002619!5.26e-15!22;UBERON:0001950!4.79e-13!20;UBERON:0000956!1.23e-12!25;UBERON:0000203!1.23e-12!25;UBERON:0001893!1.07e-11!34;UBERON:0001869!1.49e-11!32;UBERON:0002791!4.17e-10!32;UBERON:0002780!9.86e-10!41;UBERON:0001890!9.86e-10!41;UBERON:0003080!9.86e-10!41;UBERON:0006240!9.86e-10!41;UBERON:0003528!3.21e-09!34;UBERON:0002020!3.21e-09!34;UBERON:0000200!1.38e-08!6;UBERON:0004457!1.16e-07!12;UBERON:0000042!1.16e-07!12;UBERON:0004458!2.72e-07!49
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}}
}}

Revision as of 15:34, 26 November 2012


Full id: C2553_mature_Mast_Adipocyte_acute_adipose_lung_Mesothelial



Phase1 CAGE Peaks

Hg19::chr1:202318658..202318661,+p@chr1:202318658..202318661
+
Hg19::chr1:87595497..87595541,+p2@HS2ST1
Hg19::chr1:87595542..87595557,+p6@HS2ST1
Hg19::chr1:87595558..87595574,+p8@HS2ST1


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
fat cell1.18e-1215
histamine secreting cell1.15e-085
biogenic amine secreting cell1.15e-085
granulocytopoietic cell1.15e-085
mast cell1.15e-085
mast cell progenitor1.15e-085
basophil mast progenitor cell1.15e-085
preadipocyte3.02e-0712
Uber Anatomy
Ontology termp-valuen
adult organism9.02e-32114
regional part of cerebral cortex5.26e-1522
neocortex4.79e-1320
cerebral cortex1.23e-1225
pallium1.23e-1225
telencephalon1.07e-1134
cerebral hemisphere1.49e-1132
regional part of telencephalon4.17e-1032
regional part of forebrain9.86e-1041
forebrain9.86e-1041
anterior neural tube9.86e-1041
future forebrain9.86e-1041
brain grey matter3.21e-0934
gray matter3.21e-0934
gyrus1.38e-086
cavity lining1.16e-0712
serous membrane1.16e-0712
body cavity or lining2.72e-0749
Disease
Ontology termp-valuen
ovarian cancer1.95e-0714


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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