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Coexpression cluster:C3293

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Full id: C3293_Mesenchymal_Smooth_Synoviocyte_tenocyte_leiomyoma_Cardiac_Fibroblast



Phase1 CAGE Peaks

Hg19::chr12:53491413..53491430,+p2@IGFBP6
Hg19::chr12:53491441..53491458,+p1@IGFBP6
Hg19::chr12:53491743..53491754,+p1@AK074416


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


GO IDGO nameFDR corrected p-value
GO:0005520insulin-like growth factor binding0.0246000908311046
GO:0019838growth factor binding0.0246000908311046
GO:0001558regulation of cell growth0.0246000908311046
GO:0016049cell growth0.0246000908311046
GO:0040008regulation of growth0.0246000908311046
GO:0008361regulation of cell size0.0246000908311046
GO:0008285negative regulation of cell proliferation0.0246000908311046
GO:0042127regulation of cell proliferation0.0365830684092782
GO:0000902cell morphogenesis0.0365830684092782
GO:0032989cellular structure morphogenesis0.0365830684092782
GO:0005615extracellular space0.0367361356411162
GO:0008283cell proliferation0.0475146198830409



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
organism subdivision6.41e-25264
dense mesenchyme tissue1.37e-2373
somite1.62e-2371
presomitic mesoderm1.62e-2371
presumptive segmental plate1.62e-2371
dermomyotome1.62e-2371
trunk paraxial mesoderm1.62e-2371
epithelial vesicle2.74e-2378
paraxial mesoderm3.61e-2372
presumptive paraxial mesoderm3.61e-2372
skeletal muscle tissue2.63e-2262
striated muscle tissue2.63e-2262
myotome2.63e-2262
muscle tissue4.02e-2264
musculature4.02e-2264
musculature of body4.02e-2264
mesenchyme6.10e-22160
entire embryonic mesenchyme6.10e-22160
multilaminar epithelium6.99e-2283
trunk mesenchyme1.19e-20122
trunk6.24e-20199
multi-tissue structure1.20e-19342
unilaminar epithelium1.63e-16148
cell layer3.43e-15309
epithelium1.46e-14306
splanchnic layer of lateral plate mesoderm2.41e-1483
multi-cellular organism6.24e-13656
surface structure1.74e-1299
epithelial tube1.80e-12117
artery1.88e-1242
arterial blood vessel1.88e-1242
arterial system1.88e-1242
anatomical system1.15e-11624
systemic artery1.53e-1133
systemic arterial system1.53e-1133
anatomical group1.68e-11625
anatomical cluster1.86e-11373
vasculature1.73e-1078
vascular system1.73e-1078
epithelial tube open at both ends1.83e-1059
blood vessel1.83e-1059
blood vasculature1.83e-1059
vascular cord1.83e-1059
anatomical conduit4.17e-09240
vessel9.63e-0968
compound organ6.04e-0868
heart9.45e-0824
primitive heart tube9.45e-0824
primary heart field9.45e-0824
anterior lateral plate mesoderm9.45e-0824
heart tube9.45e-0824
heart primordium9.45e-0824
cardiac mesoderm9.45e-0824
cardiogenic plate9.45e-0824
heart rudiment9.45e-0824
circulatory system1.31e-07112
primary circulatory organ1.33e-0727
cardiovascular system1.78e-07109
organ component layer4.70e-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
SUZ12#23512350.11578091106297.93834897779404e-060.000221618077757774
TCF7L2#6934310.77017656313730.0008003181298398380.00612250404060525



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.