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Coexpression cluster:C2121


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Full id: C2121_spinal_epididymis_glioma_thalamus_locus_pineal_medulla

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

GO IDGO nameFDR corrected p-value
GO:0008294calcium- and calmodulin-responsive adenylate cyclase activity0.00397386082656305
GO:0004016adenylate cyclase activity0.00647592134699164
GO:0006171cAMP biosynthetic process0.00647592134699164
GO:0046058cAMP metabolic process0.00647592134699164
GO:0016849phosphorus-oxygen lyase activity0.00647592134699164
GO:0009975cyclase activity0.00647592134699164
GO:0004289subtilase activity0.00647592134699164
GO:0009190cyclic nucleotide biosynthetic process0.00647592134699164
GO:0007611learning and/or memory0.00647592134699164
GO:0009187cyclic nucleotide metabolic process0.00662310137760509
GO:0009165nucleotide biosynthetic process0.0277434357706346
GO:0016829lyase activity0.0277434357706346
GO:0004252serine-type endopeptidase activity0.0277434357706346
GO:0009117nucleotide metabolic process0.0277434357706346
GO:0055086nucleobase, nucleoside and nucleotide metabolic process0.0277434357706346
GO:0008236serine-type peptidase activity0.0277434357706346
GO:0017171serine hydrolase activity0.0277434357706346
GO:0000287magnesium ion binding0.0311634349030471
GO:0005624membrane fraction0.0452357824090427

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
neuronal stem cell1.93e-118
neural cell9.93e-0925
embryonic stem cell1.34e-085
electrically signaling cell2.02e-086
neurectodermal cell5.36e-0759
Uber Anatomy
Ontology termp-valuen
central nervous system4.83e-7781
nervous system1.03e-7389
neural tube8.89e-6956
neural rod8.89e-6956
future spinal cord8.89e-6956
neural keel8.89e-6956
regional part of nervous system1.62e-6353
regional part of brain1.62e-6353
future brain4.48e-5968
neural plate1.46e-5782
presumptive neural plate1.46e-5782
regional part of forebrain4.75e-4941
anterior neural tube4.75e-4941
future forebrain4.75e-4941
pre-chordal neural plate1.40e-4461
adult organism5.87e-43114
ectoderm-derived structure7.49e-43171
presumptive ectoderm7.49e-43171
brain grey matter3.16e-4234
gray matter3.16e-4234
regional part of telencephalon6.53e-3932
cerebral hemisphere1.21e-3832
structure with developmental contribution from neural crest3.93e-32132
regional part of cerebral cortex6.59e-3122
organ system subdivision2.22e-30223
cerebral cortex1.06e-2825
posterior neural tube5.04e-2015
chordal neural plate5.04e-2015
anatomical cluster5.55e-17373
segmental subdivision of hindbrain4.24e-1512
presumptive hindbrain4.24e-1512
neural nucleus4.57e-159
nucleus of brain4.57e-159
basal ganglion6.86e-159
nuclear complex of neuraxis6.86e-159
aggregate regional part of brain6.86e-159
collection of basal ganglia6.86e-159
cerebral subcortex6.86e-159
segmental subdivision of nervous system1.06e-1313
telencephalic nucleus8.83e-127
multi-tissue structure2.57e-11342
multi-cellular organism4.05e-11656
regional part of metencephalon1.83e-109
future metencephalon1.83e-109
cell layer2.04e-10309
germ layer2.99e-10560
germ layer / neural crest2.99e-10560
embryonic tissue2.99e-10560
presumptive structure2.99e-10560
germ layer / neural crest derived structure2.99e-10560
epiblast (generic)2.99e-10560
anatomical conduit4.85e-10240
embryonic structure5.71e-10564
developing anatomical structure1.03e-09581
limbic system3.07e-095
anatomical system3.22e-09624
anatomical group3.73e-09625
occipital lobe6.62e-095
future diencephalon1.82e-087
temporal lobe2.11e-086
organ part2.13e-08218
parietal lobe2.44e-085
regional part of diencephalon1.08e-074
corpus striatum3.16e-074
ventral part of telencephalon3.16e-074
future corpus striatum3.16e-074
atypical epithelium9.76e-074

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

(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)


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.