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Coexpression cluster:C965

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Full id: C965_smooth_Osteoblast_Adipocyte_aorta_penis_Preadipocyte_normal



Phase1 CAGE Peaks

Hg19::chrX:153593573..153593599,-p6@FLNA
Hg19::chrX:153594489..153594515,-p@chrX:153594489..153594515
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Hg19::chrX:153594978..153595014,-p@chrX:153594978..153595014
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Hg19::chrX:153595130..153595149,-p@chrX:153595130..153595149
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Hg19::chrX:153595810..153595838,-p@chrX:153595810..153595838
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Hg19::chrX:153595864..153595919,-p@chrX:153595864..153595919
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Hg19::chrX:153596060..153596111,-p@chrX:153596060..153596111
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Hg19::chrX:153596325..153596358,-p@chrX:153596325..153596358
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Hg19::chrX:153599349..153599396,-p5@FLNA


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>


Cell Type
Ontology termp-valuen
somatic cell3.63e-20588
animal cell3.69e-18679
eukaryotic cell3.69e-18679
native cell5.37e-13722
multi fate stem cell5.15e-12427
somatic stem cell8.04e-12433
defensive cell3.20e-1148
phagocyte3.20e-1148
classical monocyte4.53e-1142
CD14-positive, CD16-negative classical monocyte4.53e-1142
stem cell6.03e-11441
fibroblast9.73e-1176
mesodermal cell7.08e-09121
stuff accumulating cell1.03e-0887
embryonic cell2.82e-07250
connective tissue cell3.23e-07361
monopoietic cell3.56e-0759
monocyte3.56e-0759
monoblast3.56e-0759
promonocyte3.56e-0759
mesenchymal cell4.69e-07354
smooth muscle cell7.06e-0743
smooth muscle myoblast7.06e-0743
Uber Anatomy
Ontology termp-valuen
mesoderm4.39e-18315
mesoderm-derived structure4.39e-18315
presumptive mesoderm4.39e-18315
lateral plate mesoderm1.12e-11203
musculoskeletal system1.42e-08167
artery9.60e-0842
arterial blood vessel9.60e-0842
arterial system9.60e-0842
vasculature1.79e-0778
vascular system1.79e-0778
epithelial vesicle1.89e-0778
connective tissue5.35e-07371
cardiovascular system7.10e-07109
epithelial tube open at both ends9.63e-0759
blood vessel9.63e-0759
blood vasculature9.63e-0759
vascular cord9.63e-0759
vessel9.64e-0768


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
POLR2A#543092.147453176558070.001029412892608020.00729084857528072



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.