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Coexpression cluster:C574

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Full id: C574_Mesenchymal_Fibroblast_Smooth_Prostate_Adipocyte_Hair_mesenchymal



Phase1 CAGE Peaks

Hg19::chr4:1161154..1161170,-p@chr4:1161154..1161170
-
Hg19::chr4:1164223..1164265,-p@chr4:1164223..1164265
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Hg19::chr4:1164305..1164316,-p@chr4:1164305..1164316
-
Hg19::chr4:1164817..1164847,-p5@SPON2
Hg19::chr4:1164865..1164905,-p4@SPON2
Hg19::chr4:1164925..1164936,-p11@SPON2
Hg19::chr4:1164956..1164968,-p16@SPON2
Hg19::chr4:1165106..1165131,-p15@SPON2
Hg19::chr4:1165213..1165245,+p@chr4:1165213..1165245
+
Hg19::chr4:1165260..1165276,-p17@SPON2
Hg19::chr4:1165666..1165705,-p7@SPON2
Hg19::chr4:1165755..1165774,-p12@SPON2
Hg19::chr4:1165811..1165842,-p10@SPON2
Hg19::chr4:1166363..1166378,-p1@SPON2
Hg19::chr4:1166587..1166600,-p2@SPON2
Hg19::chr4:1166623..1166634,-p3@SPON2


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
multi fate stem cell1.53e-16427
somatic stem cell2.92e-16433
stem cell2.70e-15441
fibroblast1.39e-1376
connective tissue cell4.79e-12361
preadipocyte2.20e-1112
mesenchymal cell6.33e-11354
motile cell5.02e-10386
fat cell2.31e-0915
mesenchymal stem cell of adipose3.28e-098
somatic cell3.97e-09588
extraembryonic cell3.51e-0719
Uber Anatomy
Ontology termp-valuen
connective tissue8.78e-12371
adipose tissue6.97e-1114
organ component layer3.19e-1066
cavity lining1.15e-0812
serous membrane1.15e-0812
omentum1.18e-086
peritoneum1.18e-086
abdominal cavity1.18e-086
visceral peritoneum1.18e-086
somite2.85e-0871
presomitic mesoderm2.85e-0871
presumptive segmental plate2.85e-0871
dermomyotome2.85e-0871
trunk paraxial mesoderm2.85e-0871
trunk mesenchyme3.30e-08122
mesoderm4.27e-08315
mesoderm-derived structure4.27e-08315
presumptive mesoderm4.27e-08315
paraxial mesoderm4.89e-0872
presumptive paraxial mesoderm4.89e-0872
surface structure6.86e-0899
dense mesenchyme tissue8.24e-0873
integument1.06e-0746
integumental system1.06e-0746
epithelial vesicle1.87e-0778
hypodermis2.65e-075
mesenchyme4.09e-07160
entire embryonic mesenchyme4.09e-07160
trunk4.49e-07199
multilaminar epithelium4.91e-0783
Disease
Ontology termp-valuen
ovarian cancer4.41e-1114


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#1066482.680128186537510.00449100386855960.0212473817906453
SUZ12#2351239.39670892082430.003659155081411430.0184769374630145



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.