Personal tools

Coexpression cluster:C3191

From FANTOM5_SSTAR

Revision as of 05:33, 21 May 2012 by Autoedit (talk | contribs)
Jump to: navigation, search


Full id: C3191_bile_Smooth_leiomyoma_Hair_prostate_Preadipocyte_Myoblast



Phase1 CAGE Peaks

  Short description
Hg19::chr11:65686732..65686756,+ p2@DRAP1
Hg19::chr11:65686776..65686787,+ p9@DRAP1
Hg19::chr11:65686802..65686818,+ p6@DRAP1


Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data


No GOStat results

Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data
uberon_data


Uber Anatomy
Ontology termp-valuen
somite1.20e-2183
paraxial mesoderm1.20e-2183
presomitic mesoderm1.20e-2183
presumptive segmental plate1.20e-2183
trunk paraxial mesoderm1.20e-2183
presumptive paraxial mesoderm1.20e-2183
multilaminar epithelium2.07e-2082
trunk mesenchyme2.83e-18143
dermomyotome2.86e-1870
artery1.25e-1642
arterial blood vessel1.25e-1642
arterial system1.25e-1642
vessel2.33e-1569
blood vessel1.26e-1460
epithelial tube open at both ends1.26e-1460
blood vasculature1.26e-1460
vascular cord1.26e-1460
skeletal muscle tissue1.90e-1461
striated muscle tissue1.90e-1461
myotome1.90e-1461
vasculature2.84e-1479
vascular system2.84e-1479
systemic artery7.95e-1433
systemic arterial system7.95e-1433
surface structure2.15e-1395
trunk3.66e-13216
muscle tissue6.56e-1363
musculature6.56e-1363
musculature of body6.56e-1363
unilaminar epithelium1.08e-12138
epithelial tube1.18e-11118
splanchnic layer of lateral plate mesoderm2.01e-1184
integument1.89e-0945
integumental system1.89e-0945
mesenchyme1.91e-09238
entire embryonic mesenchyme1.91e-09238
organism subdivision2.06e-09365
mesoderm3.09e-09448
mesoderm-derived structure3.09e-09448
presumptive mesoderm3.09e-09448
musculoskeletal system1.85e-08167
cell layer2.28e-08312
epithelium2.77e-08309
skin of body3.40e-0840
cardiovascular system3.51e-08110
anatomical system1.19e-07625
anatomical group1.33e-07626
circulatory system1.49e-07113
aorta4.01e-0721
aortic system4.01e-0721


Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data


No analysis results for this cluster

Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data


This analysis result is provided for C0 - C305 clusters.