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Coexpression cluster:C3465


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Full id: C3465_testis_ductus_liver_seminal_Hepatocyte_hepatocellular_spleen

Phase1 CAGE Peaks


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
metabolising cell2.00e-0812
endopolyploid cell2.00e-0812
parenchymal cell2.00e-0812
polyploid cell2.00e-0812
Uber Anatomy
Ontology termp-valuen
adult organism2.26e-35115
neural plate8.60e-1786
presumptive neural plate8.60e-1786
central nervous system1.12e-1682
anatomical cluster1.36e-16286
regional part of nervous system3.67e-1594
nervous system3.67e-1594
neural tube2.24e-1457
neural rod2.24e-1457
future spinal cord2.24e-1457
neural keel2.24e-1457
anterior region of body2.74e-14129
craniocervical region2.74e-14129
multi-tissue structure3.27e-14347
regional part of brain7.05e-1459
anatomical conduit7.34e-14241
future brain1.95e-1369
multi-cellular organism3.40e-13659
pre-chordal neural plate3.45e-1261
ectoderm-derived structure8.28e-12169
organism subdivision9.63e-12365
presumptive ectoderm3.14e-11173
cell layer1.68e-10312
anterior neural tube1.84e-1042
regional part of forebrain7.67e-1041
future forebrain7.67e-1041
digestive tract diverticulum2.18e-0923
embryonic structure3.61e-09605
developing anatomical structure3.61e-09605
epithelium of foregut-midgut junction4.06e-0925
anatomical boundary4.06e-0925
hepatobiliary system4.06e-0925
foregut-midgut junction4.06e-0925
septum transversum4.06e-0925
germ layer8.11e-09604
embryonic tissue8.11e-09604
presumptive structure8.11e-09604
epiblast (generic)8.11e-09604
hepatic diverticulum8.79e-0922
liver primordium8.79e-0922
anatomical system1.31e-08625
anatomical group1.73e-08626
digestive gland2.58e-0819
liver bud2.58e-0819
immune organ3.33e-0826
endocrine gland4.80e-0835
abdomen element1.21e-0755
abdominal segment element1.21e-0755
epithelial sac1.47e-0725
compound organ1.76e-0769
gray matter7.74e-0734
brain grey matter7.74e-0734
abdominal segment of trunk8.36e-0761
endocrine system9.67e-0745

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



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.