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{{Coexpression_clusters
{{Coexpression_clusters
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|full_id=C1510_heart_left_aorta_retina_penis_cerebral_nucleus
|full_id=C1510_heart_left_aorta_retina_penis_cerebral_nucleus
|gostat_on_coexpression_clusters=GO:0019932!second-messenger-mediated signaling!0.00235484582965663!10231;111$GO:0007195!dopamine receptor, adenylate cyclase inhibiting pathway!0.00235484582965663!111$GO:0001973!adenosine receptor signaling pathway!0.00235484582965663!111$GO:0030346!protein phosphatase 2B binding!0.00264916256568538!10231$GO:0007191!dopamine receptor, adenylate cyclase activating pathway!0.00282573181120752!111$GO:0004016!adenylate cyclase activity!0.005801219274165!111$GO:0019903!protein phosphatase binding!0.005801219274165!10231$GO:0007212!dopamine receptor signaling pathway!0.005801219274165!111$GO:0050885!neuromuscular process controlling balance!0.005801219274165!111$GO:0007193!G-protein signaling, adenylate cyclase inhibiting pathway!0.005801219274165!111$GO:0006171!cAMP biosynthetic process!0.005801219274165!111$GO:0019902!phosphatase binding!0.005801219274165!10231$GO:0046058!cAMP metabolic process!0.005801219274165!111$GO:0050905!neuromuscular process!0.005801219274165!111$GO:0016849!phosphorus-oxygen lyase activity!0.00725703423266822!111$GO:0009975!cyclase activity!0.00725703423266822!111$GO:0007189!G-protein signaling, adenylate cyclase activating pathway!0.00725703423266822!111$GO:0019722!calcium-mediated signaling!0.00725703423266822!10231$GO:0009190!cyclic nucleotide biosynthetic process!0.00743219603252548!111$GO:0009187!cyclic nucleotide metabolic process!0.00882443303267968!111$GO:0007242!intracellular signaling cascade!0.00955446881071249!10231;111$GO:0007188!G-protein signaling, coupled to cAMP nucleotide second messenger!0.0133444744766028!111$GO:0019933!cAMP-mediated signaling!0.0133444744766028!111$GO:0007187!G-protein signaling, coupled to cyclic nucleotide second messenger!0.017190663102313!111$GO:0019935!cyclic-nucleotide-mediated signaling!0.0172070259898471!111$GO:0007626!locomotory behavior!0.0245252388860843!111$GO:0032501!multicellular organismal process!0.0281206762138235!10231;111$GO:0007417!central nervous system development!0.0295441581958837!10231$GO:0009165!nucleotide biosynthetic process!0.0309439441259926!111$GO:0016829!lyase activity!0.0325993868001008!111$GO:0007610!behavior!0.0333556049337517!111$GO:0019899!enzyme binding!0.0335167902888808!10231$GO:0009117!nucleotide metabolic process!0.0362120198484877!111$GO:0055086!nucleobase, nucleoside and nucleotide metabolic process!0.0379228904977998!111$GO:0007165!signal transduction!0.0392675165512817!10231;111$GO:0000287!magnesium ion binding!0.0434301715857959!111$GO:0007154!cell communication!0.0434301715857959!10231;111
|gostat_on_coexpression_clusters=GO:0019932!second-messenger-mediated signaling!0.00235484582965663!10231;111$GO:0007195!dopamine receptor, adenylate cyclase inhibiting pathway!0.00235484582965663!111$GO:0001973!adenosine receptor signaling pathway!0.00235484582965663!111$GO:0030346!protein phosphatase 2B binding!0.00264916256568538!10231$GO:0007191!dopamine receptor, adenylate cyclase activating pathway!0.00282573181120752!111$GO:0004016!adenylate cyclase activity!0.005801219274165!111$GO:0019903!protein phosphatase binding!0.005801219274165!10231$GO:0007212!dopamine receptor signaling pathway!0.005801219274165!111$GO:0050885!neuromuscular process controlling balance!0.005801219274165!111$GO:0007193!G-protein signaling, adenylate cyclase inhibiting pathway!0.005801219274165!111$GO:0006171!cAMP biosynthetic process!0.005801219274165!111$GO:0019902!phosphatase binding!0.005801219274165!10231$GO:0046058!cAMP metabolic process!0.005801219274165!111$GO:0050905!neuromuscular process!0.005801219274165!111$GO:0016849!phosphorus-oxygen lyase activity!0.00725703423266822!111$GO:0009975!cyclase activity!0.00725703423266822!111$GO:0007189!G-protein signaling, adenylate cyclase activating pathway!0.00725703423266822!111$GO:0019722!calcium-mediated signaling!0.00725703423266822!10231$GO:0009190!cyclic nucleotide biosynthetic process!0.00743219603252548!111$GO:0009187!cyclic nucleotide metabolic process!0.00882443303267968!111$GO:0007242!intracellular signaling cascade!0.00955446881071249!10231;111$GO:0007188!G-protein signaling, coupled to cAMP nucleotide second messenger!0.0133444744766028!111$GO:0019933!cAMP-mediated signaling!0.0133444744766028!111$GO:0007187!G-protein signaling, coupled to cyclic nucleotide second messenger!0.017190663102313!111$GO:0019935!cyclic-nucleotide-mediated signaling!0.0172070259898471!111$GO:0007626!locomotory behavior!0.0245252388860843!111$GO:0032501!multicellular organismal process!0.0281206762138235!10231;111$GO:0007417!central nervous system development!0.0295441581958837!10231$GO:0009165!nucleotide biosynthetic process!0.0309439441259926!111$GO:0016829!lyase activity!0.0325993868001008!111$GO:0007610!behavior!0.0333556049337517!111$GO:0019899!enzyme binding!0.0335167902888808!10231$GO:0009117!nucleotide metabolic process!0.0362120198484877!111$GO:0055086!nucleobase, nucleoside and nucleotide metabolic process!0.0379228904977998!111$GO:0007165!signal transduction!0.0392675165512817!10231;111$GO:0000287!magnesium ion binding!0.0434301715857959!111$GO:0007154!cell communication!0.0434301715857959!10231;111

Revision as of 14:05, 12 September 2012


Full id: C1510_heart_left_aorta_retina_penis_cerebral_nucleus



Phase1 CAGE Peaks

Hg19::chr3:123168551..123168642,-p1@ADCY5
Hg19::chr6:46459112..46459132,-p4@RCAN2
Hg19::chr6:46459144..46459155,-p9@RCAN2
Hg19::chr6:46459168..46459217,-p2@RCAN2
Hg19::chr6:46459218..46459241,-p5@RCAN2
Hg19::chr6:46459675..46459716,-p6@RCAN2


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:0019932second-messenger-mediated signaling0.00235484582965663
GO:0007195dopamine receptor, adenylate cyclase inhibiting pathway0.00235484582965663
GO:0001973adenosine receptor signaling pathway0.00235484582965663
GO:0030346protein phosphatase 2B binding0.00264916256568538
GO:0007191dopamine receptor, adenylate cyclase activating pathway0.00282573181120752
GO:0004016adenylate cyclase activity0.005801219274165
GO:0019903protein phosphatase binding0.005801219274165
GO:0007212dopamine receptor signaling pathway0.005801219274165
GO:0050885neuromuscular process controlling balance0.005801219274165
GO:0007193G-protein signaling, adenylate cyclase inhibiting pathway0.005801219274165
GO:0006171cAMP biosynthetic process0.005801219274165
GO:0019902phosphatase binding0.005801219274165
GO:0046058cAMP metabolic process0.005801219274165
GO:0050905neuromuscular process0.005801219274165
GO:0016849phosphorus-oxygen lyase activity0.00725703423266822
GO:0009975cyclase activity0.00725703423266822
GO:0007189G-protein signaling, adenylate cyclase activating pathway0.00725703423266822
GO:0019722calcium-mediated signaling0.00725703423266822
GO:0009190cyclic nucleotide biosynthetic process0.00743219603252548
GO:0009187cyclic nucleotide metabolic process0.00882443303267968
GO:0007242intracellular signaling cascade0.00955446881071249
GO:0007188G-protein signaling, coupled to cAMP nucleotide second messenger0.0133444744766028
GO:0019933cAMP-mediated signaling0.0133444744766028
GO:0007187G-protein signaling, coupled to cyclic nucleotide second messenger0.017190663102313
GO:0019935cyclic-nucleotide-mediated signaling0.0172070259898471
GO:0007626locomotory behavior0.0245252388860843
GO:0032501multicellular organismal process0.0281206762138235
GO:0007417central nervous system development0.0295441581958837
GO:0009165nucleotide biosynthetic process0.0309439441259926
GO:0016829lyase activity0.0325993868001008
GO:0007610behavior0.0333556049337517
GO:0019899enzyme binding0.0335167902888808
GO:0009117nucleotide metabolic process0.0362120198484877
GO:0055086nucleobase, nucleoside and nucleotide metabolic process0.0379228904977998
GO:0007165signal transduction0.0392675165512817
GO:0000287magnesium ion binding0.0434301715857959
GO:0007154cell communication0.0434301715857959



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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
adult organism4.20e-45115
neural tube2.00e-2857
neural rod2.00e-2857
future spinal cord2.00e-2857
neural keel2.00e-2857
neural plate8.46e-2886
presumptive neural plate8.46e-2886
central nervous system2.19e-2782
regional part of brain3.22e-2759
neurectoderm4.45e-2690
regional part of nervous system5.17e-2694
nervous system5.17e-2694
brain1.72e-2569
future brain1.72e-2569
head3.58e-25123
anterior region of body9.30e-25129
craniocervical region9.30e-25129
anterior neural tube1.42e-2242
regional part of forebrain4.08e-2241
forebrain4.08e-2241
future forebrain4.08e-2241
pre-chordal neural plate1.37e-2161
organism subdivision3.62e-21365
ectoderm-derived structure2.02e-20169
ectoderm1.22e-19173
presumptive ectoderm1.22e-19173
telencephalon3.16e-1834
gray matter4.34e-1834
brain grey matter4.34e-1834
regional part of telencephalon1.41e-1733
cerebral hemisphere4.61e-1732
multi-tissue structure1.71e-14347
organ2.20e-14511
anatomical cluster4.89e-14286
organ part8.56e-14219
multi-cellular organism1.59e-13659
regional part of cerebral cortex1.74e-1322
cerebral cortex9.12e-1325
pallium9.12e-1325
neocortex9.91e-1320
anatomical conduit3.06e-11241
cell layer5.15e-10312
epithelium1.71e-09309
anatomical system1.90e-09625
anatomical group3.07e-09626
tube7.68e-09194
posterior neural tube4.44e-0715
chordal neural plate4.44e-0715
embryo5.31e-07612
nucleus of brain6.97e-079
neural nucleus6.97e-079
basal ganglion9.04e-079
nuclear complex of neuraxis9.04e-079
aggregate regional part of brain9.04e-079
collection of basal ganglia9.04e-079
cerebral subcortex9.04e-079


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)

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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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