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{{Coexpression_clusters
{{Coexpression_clusters
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|full_id=C3418_Endothelial_Renal_heart_lung_Chondrocyte_spleen_penis
|full_id=C3418_Endothelial_Renal_heart_lung_Chondrocyte_spleen_penis
|gostat_on_coexpression_clusters=GO:0004016!adenylate cyclase activity!0.00524549629106322!196883$GO:0006171!cAMP biosynthetic process!0.00524549629106322!196883$GO:0046058!cAMP metabolic process!0.00524549629106322!196883$GO:0016849!phosphorus-oxygen lyase activity!0.00524549629106322!196883$GO:0009975!cyclase activity!0.00524549629106322!196883$GO:0009190!cyclic nucleotide biosynthetic process!0.00529848110208407!196883$GO:0009187!cyclic nucleotide metabolic process!0.00567694403794722!196883$GO:0009165!nucleotide biosynthetic process!0.0245496291063228!196883$GO:0016829!lyase activity!0.0245496291063228!196883$GO:0009117!nucleotide metabolic process!0.0265164895154298!196883$GO:0055086!nucleobase, nucleoside and nucleotide metabolic process!0.0265164895154298!196883$GO:0000287!magnesium ion binding!0.0296052631578947!196883
|gostat_on_coexpression_clusters=GO:0004016!adenylate cyclase activity!0.00524549629106322!196883$GO:0006171!cAMP biosynthetic process!0.00524549629106322!196883$GO:0046058!cAMP metabolic process!0.00524549629106322!196883$GO:0016849!phosphorus-oxygen lyase activity!0.00524549629106322!196883$GO:0009975!cyclase activity!0.00524549629106322!196883$GO:0009190!cyclic nucleotide biosynthetic process!0.00529848110208407!196883$GO:0009187!cyclic nucleotide metabolic process!0.00567694403794722!196883$GO:0009165!nucleotide biosynthetic process!0.0245496291063228!196883$GO:0016829!lyase activity!0.0245496291063228!196883$GO:0009117!nucleotide metabolic process!0.0265164895154298!196883$GO:0055086!nucleobase, nucleoside and nucleotide metabolic process!0.0265164895154298!196883$GO:0000287!magnesium ion binding!0.0296052631578947!196883

Revision as of 16:20, 12 September 2012


Full id: C3418_Endothelial_Renal_heart_lung_Chondrocyte_spleen_penis



Phase1 CAGE Peaks

Hg19::chr14:24804269..24804292,-p1@ADCY4
Hg19::chr14:24804295..24804306,-p2@ADCY4
Hg19::chr19:8408139..8408153,-p1@KANK3


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

GO IDGO nameFDR corrected p-value
GO:0004016adenylate cyclase activity0.00524549629106322
GO:0006171cAMP biosynthetic process0.00524549629106322
GO:0046058cAMP metabolic process0.00524549629106322
GO:0016849phosphorus-oxygen lyase activity0.00524549629106322
GO:0009975cyclase activity0.00524549629106322
GO:0009190cyclic nucleotide biosynthetic process0.00529848110208407
GO:0009187cyclic nucleotide metabolic process0.00567694403794722
GO:0009165nucleotide biosynthetic process0.0245496291063228
GO:0016829lyase activity0.0245496291063228
GO:0009117nucleotide metabolic process0.0265164895154298
GO:0055086nucleobase, nucleoside and nucleotide metabolic process0.0265164895154298
GO:0000287magnesium ion binding0.0296052631578947



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>

Uber Anatomy
Ontology termp-valuen
adult organism1.65e-35115
anatomical conduit2.21e-20241
anatomical cluster1.46e-17286
tube1.11e-16194
neural tube7.00e-1557
neural rod7.00e-1557
future spinal cord7.00e-1557
neural keel7.00e-1557
epithelium1.60e-14309
cell layer3.33e-14312
regional part of brain6.83e-1459
multi-cellular organism1.77e-13659
anterior neural tube6.18e-1342
endothelium2.13e-1218
blood vessel endothelium2.13e-1218
cardiovascular system endothelium2.13e-1218
regional part of forebrain2.17e-1241
forebrain2.17e-1241
future forebrain2.17e-1241
anatomical system1.08e-11625
neural plate1.59e-1186
presumptive neural plate1.59e-1186
central nervous system1.67e-1182
anatomical group1.76e-11626
neurectoderm1.79e-1190
organism subdivision2.26e-11365
brain4.90e-1169
future brain4.90e-1169
gray matter6.17e-1134
brain grey matter6.17e-1134
telencephalon8.99e-1134
regional part of nervous system1.00e-1094
nervous system1.00e-1094
regional part of telencephalon1.85e-1033
cerebral hemisphere3.74e-1032
vessel7.94e-1069
anterior region of body1.73e-09129
craniocervical region1.73e-09129
head3.94e-09123
simple squamous epithelium4.15e-0922
squamous epithelium4.38e-0925
vasculature5.29e-0979
vascular system5.29e-0979
ectoderm5.47e-09173
presumptive ectoderm5.47e-09173
ectoderm-derived structure6.80e-09169
regional part of cerebral cortex7.42e-0922
multi-tissue structure1.02e-08347
splanchnic layer of lateral plate mesoderm2.44e-0884
pre-chordal neural plate2.79e-0861
neocortex3.21e-0820
blood vessel5.45e-0860
epithelial tube open at both ends5.45e-0860
blood vasculature5.45e-0860
vascular cord5.45e-0860
cerebral cortex1.13e-0725
pallium1.13e-0725
organ part1.55e-07219
epithelial tube2.27e-07118
compound organ2.79e-0769
endothelial tube2.82e-079
arterial system endothelium2.82e-079
endothelium of artery2.82e-079
embryo2.98e-07612
circulatory system3.68e-07113


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.

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