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Coexpression cluster:C4049

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Full id: C4049_choriocarcinoma_MCF7_pancreatic_Hair_breast_testicular_gall



Phase1 CAGE Peaks

Hg19::chr20:55204351..55204377,+p1@TFAP2C
Hg19::chr20:55213326..55213338,+p@chr20:55213326..55213338
+
Hg19::chr20:55213735..55213739,+p@chr20:55213735..55213739
+


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
epithelial cell1.05e-15253
endo-epithelial cell1.72e-1042
ectodermal cell4.24e-1072
germ line cell8.65e-087
germ cell8.65e-087
neurectodermal cell1.21e-0759
ecto-epithelial cell1.51e-0734
endodermal cell7.55e-0758
Uber Anatomy
Ontology termp-valuen
surface structure1.34e-2099
mouth5.55e-1529
stomodeum5.55e-1529
endoderm-derived structure2.22e-13160
endoderm2.22e-13160
presumptive endoderm2.22e-13160
orifice5.65e-1336
digestive system9.33e-12145
digestive tract9.33e-12145
primitive gut9.33e-12145
mucosa1.52e-1120
oral opening3.30e-1122
respiratory system1.07e-1074
mouth mucosa1.15e-0913
epithelial bud9.96e-0937
head1.04e-0856
subdivision of head1.31e-0849
organ component layer1.53e-0866
anterior region of body5.63e-0862
craniocervical region5.63e-0862
ectoderm-derived structure5.75e-08171
ectoderm5.75e-08171
presumptive ectoderm5.75e-08171
epithelial fold7.49e-0847
skin of body1.31e-0741
organ2.24e-07503
gingiva2.96e-078
extraembryonic membrane3.15e-0714
membranous layer3.15e-0714
Disease
Ontology termp-valuen
carcinoma6.42e-12106
cell type cancer3.41e-11143
squamous cell carcinoma9.52e-0814


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.