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Coexpression cluster:C714

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Full id: C714_Smooth_Fibroblast_Mesenchymal_mesenchymal_Myoblast_leiomyoma_Preadipocyte



Phase1 CAGE Peaks

Hg19::chr6:130686664..130686693,+p7@TMEM200A
Hg19::chr6:130686698..130686732,+p8@TMEM200A
Hg19::chr6:130686856..130686885,+p11@TMEM200A
Hg19::chr6:130687103..130687170,+p1@TMEM200A
Hg19::chr6:130687172..130687179,+p10@TMEM200A
Hg19::chr6:130687198..130687218,+p3@TMEM200A
Hg19::chr6:130687449..130687474,+p5@TMEM200A
Hg19::chr6:130687521..130687535,+p6@TMEM200A
Hg19::chr6:130687547..130687569,+p2@TMEM200A
Hg19::chr6:130687570..130687594,+p4@TMEM200A
Hg19::chr6:130687599..130687610,+p9@TMEM200A
Hg19::chr6:130687612..130687617,+p13@TMEM200A


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>


Uber Anatomy
Ontology termp-valuen
dense mesenchyme tissue1.79e-2073
muscle tissue3.63e-2064
musculature3.63e-2064
musculature of body3.63e-2064
skeletal muscle tissue5.01e-2062
striated muscle tissue5.01e-2062
myotome5.01e-2062
somite5.25e-2071
presomitic mesoderm5.25e-2071
presumptive segmental plate5.25e-2071
dermomyotome5.25e-2071
trunk paraxial mesoderm5.25e-2071
paraxial mesoderm6.58e-2072
presumptive paraxial mesoderm6.58e-2072
multilaminar epithelium2.41e-1883
epithelial vesicle3.56e-1778
artery1.89e-1242
arterial blood vessel1.89e-1242
arterial system1.89e-1242
trunk mesenchyme4.35e-11122
systemic artery5.14e-1133
systemic arterial system5.14e-1133
organism subdivision2.05e-09264
vasculature4.31e-0978
vascular system4.31e-0978
smooth muscle tissue4.57e-0915
mesenchyme7.59e-09160
entire embryonic mesenchyme7.59e-09160
surface structure1.66e-0899
blood vessel smooth muscle2.21e-0810
arterial system smooth muscle2.21e-0810
artery smooth muscle tissue2.21e-0810
aorta smooth muscle tissue2.21e-0810
unilaminar epithelium8.61e-08148
epithelial tube open at both ends1.31e-0759
blood vessel1.31e-0759
blood vasculature1.31e-0759
vascular cord1.31e-0759
trunk1.83e-07199
Disease
Ontology termp-valuen
ovarian cancer1.95e-0814


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


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
CTCF#10664125.360256373075031.77458566542848e-091.54704467705914e-07
NANOG#7992337.311194620253160.006971199585208680.0294822884583766
TCF7L2#693465.385088281568670.0003605763085939490.00360538335023872



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.