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Coexpression cluster:C3430

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Full id: C3430_Mesenchymal_Fibroblast_Pericytes_Cardiac_Nucleus_Meningeal_Placental



Phase1 CAGE Peaks

Hg19::chr14:52535726..52535753,-p2@NID2
Hg19::chr14:52535757..52535831,-p1@NID2
Hg19::chr14:52535971..52535992,-p3@NID2


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
epithelial vesicle2.55e-2378
dense mesenchyme tissue1.87e-2273
somite2.63e-2271
presomitic mesoderm2.63e-2271
presumptive segmental plate2.63e-2271
dermomyotome2.63e-2271
trunk paraxial mesoderm2.63e-2271
mesenchyme3.35e-22160
entire embryonic mesenchyme3.35e-22160
paraxial mesoderm4.89e-2272
presumptive paraxial mesoderm4.89e-2272
skeletal muscle tissue1.15e-2162
striated muscle tissue1.15e-2162
myotome1.15e-2162
muscle tissue1.93e-2164
musculature1.93e-2164
musculature of body1.93e-2164
splanchnic layer of lateral plate mesoderm3.84e-2083
trunk mesenchyme2.14e-19122
unilaminar epithelium1.42e-18148
circulatory system2.05e-17112
vasculature2.63e-1778
vascular system2.63e-1778
multilaminar epithelium2.63e-1783
cardiovascular system7.12e-17109
cell layer1.27e-16309
epithelial tube2.20e-16117
epithelium1.55e-15306
multi-cellular organism3.07e-13656
multi-tissue structure3.17e-13342
mesoderm3.95e-13315
mesoderm-derived structure3.95e-13315
presumptive mesoderm3.95e-13315
organism subdivision4.84e-13264
vessel1.49e-1268
epithelial tube open at both ends2.77e-1259
blood vessel2.77e-1259
blood vasculature2.77e-1259
vascular cord2.77e-1259
trunk2.40e-11199
primary circulatory organ1.36e-1027
heart3.05e-1024
primitive heart tube3.05e-1024
primary heart field3.05e-1024
anterior lateral plate mesoderm3.05e-1024
heart tube3.05e-1024
heart primordium3.05e-1024
cardiac mesoderm3.05e-1024
cardiogenic plate3.05e-1024
heart rudiment3.05e-1024
anatomical system3.30e-10624
artery3.75e-1042
arterial blood vessel3.75e-1042
arterial system3.75e-1042
anatomical cluster4.93e-10373
anatomical group5.06e-10625
systemic artery1.62e-0833
systemic arterial system1.62e-0833
anatomical conduit2.25e-08240
compound organ2.40e-0868
tissue3.14e-08773
organ component layer9.13e-0766


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
SP1#666735.69838137814090.005403962701712170.024592987084584
TCF12#6938310.63446490218640.0008313523990202070.00628578970544207



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.