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Coexpression cluster:C4595

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Full id: C4595_iPS_Fibroblast_Alveolar_meningioma_Endothelial_choriocarcinoma_Osteoblast



Phase1 CAGE Peaks

Hg19::chr6:34213016..34213037,+p@chr6:34213016..34213037
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Hg19::chr6:34213226..34213258,+p@chr6:34213226..34213258
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Hg19::chr6:34213536..34213558,+p@chr6:34213536..34213558
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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
animal cell6.59e-30679
eukaryotic cell6.59e-30679
embryonic cell2.65e-24250
mesodermal cell3.74e-19121
native cell7.60e-19722
epithelial cell3.56e-16253
somatic cell2.81e-15588
contractile cell9.55e-1259
electrically responsive cell1.18e-1161
electrically active cell1.18e-1161
non-terminally differentiated cell6.25e-11106
muscle cell1.34e-1055
endothelial cell2.60e-1036
muscle precursor cell3.67e-1058
myoblast3.67e-1058
multi-potent skeletal muscle stem cell3.67e-1058
smooth muscle cell1.47e-0943
smooth muscle myoblast1.47e-0943
lining cell5.77e-0958
barrier cell5.77e-0958
meso-epithelial cell7.63e-0945
blood vessel endothelial cell8.54e-0918
embryonic blood vessel endothelial progenitor cell8.54e-0918
squamous epithelial cell2.77e-0863
epithelial cell of nephron5.42e-0815
endothelial cell of vascular tree5.81e-0824
vascular associated smooth muscle cell1.84e-0732
kidney cortical cell7.13e-0712
renal cortical epithelial cell7.13e-0712
Uber Anatomy
Ontology termp-valuen
epithelial vesicle1.58e-1378
unilaminar epithelium2.94e-13148
vessel3.62e-1368
epithelial tube open at both ends4.65e-1359
blood vessel4.65e-1359
blood vasculature4.65e-1359
vascular cord4.65e-1359
vasculature8.94e-1378
vascular system8.94e-1378
epithelial tube1.17e-12117
artery1.63e-1142
arterial blood vessel1.63e-1142
arterial system1.63e-1142
somite1.10e-1071
presomitic mesoderm1.10e-1071
presumptive segmental plate1.10e-1071
dermomyotome1.10e-1071
trunk paraxial mesoderm1.10e-1071
splanchnic layer of lateral plate mesoderm1.73e-1083
paraxial mesoderm4.24e-1072
presumptive paraxial mesoderm4.24e-1072
dense mesenchyme tissue5.54e-1073
multilaminar epithelium2.06e-0983
blood vessel endothelium8.54e-0918
endothelium8.54e-0918
cardiovascular system endothelium8.54e-0918
trunk mesenchyme2.66e-08122
systemic artery2.95e-0833
systemic arterial system2.95e-0833
skeletal muscle tissue3.21e-0862
striated muscle tissue3.21e-0862
myotome3.21e-0862
simple squamous epithelium4.38e-0822
nephron epithelium5.42e-0815
renal tubule5.42e-0815
nephron tubule5.42e-0815
nephron5.42e-0815
uriniferous tubule5.42e-0815
nephrogenic mesenchyme5.42e-0815
muscle tissue1.29e-0764
musculature1.29e-0764
musculature of body1.29e-0764
excretory tube2.32e-0716
kidney epithelium2.32e-0716
parenchyma2.74e-0715
cardiovascular system5.88e-07109
mesenchyme6.12e-07160
entire embryonic mesenchyme6.12e-07160
cortex of kidney7.13e-0712
renal parenchyma7.13e-0712


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


No analysis results for this cluster

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.