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Coexpression cluster:C1034

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Full id: C1034_pituitary_olfactory_amygdala_insula_temporal_hippocampus_frontal



Phase1 CAGE Peaks

Hg19::chr14:62584201..62584208,+p1@ENST00000334389
Hg19::chr16:1383632..1383652,+p1@BAIAP3
Hg19::chr1:204320105..204320146,-p@chr1:204320105..204320146
-
Hg19::chr2:220379118..220379131,+p1@ACCN4
Hg19::chr6:69942915..69942931,+p@chr6:69942915..69942931
+
Hg19::chr6:69942947..69942963,+p@chr6:69942947..69942963
+
Hg19::chr6:69942992..69943002,+p@chr6:69942992..69943002
+
Hg19::chrX:101397536..101397555,+p@chrX:101397536..101397555
+


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:0015081sodium ion transmembrane transporter activity0.0170718784065629
GO:0007269neurotransmitter secretion0.0380050197822336
GO:0045055regulated secretory pathway0.0380050197822336
GO:0005272sodium channel activity0.0380050197822336
GO:0003001generation of a signal involved in cell-cell signaling0.0380050197822336
GO:0008022protein C-terminus binding0.0380050197822336
GO:0001505regulation of neurotransmitter levels0.0380050197822336
GO:0031402sodium ion binding0.0409176272807585



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 organism7.25e-47115
neural tube7.44e-3257
neural rod7.44e-3257
future spinal cord7.44e-3257
neural keel7.44e-3257
central nervous system1.03e-3182
regional part of nervous system7.53e-3194
nervous system7.53e-3194
neural plate1.16e-2686
presumptive neural plate1.16e-2686
neurectoderm1.82e-2590
regional part of brain2.05e-2559
brain2.42e-2569
future brain2.42e-2569
regional part of forebrain2.73e-2541
forebrain2.73e-2541
future forebrain2.73e-2541
anterior neural tube7.00e-2542
telencephalon6.71e-2134
gray matter6.98e-2134
brain grey matter6.98e-2134
regional part of telencephalon3.16e-2033
cerebral hemisphere9.54e-2032
pre-chordal neural plate7.54e-1961
regional part of cerebral cortex2.10e-1622
cerebral cortex1.86e-1525
pallium1.86e-1525
neocortex4.36e-1520
anterior region of body1.58e-13129
craniocervical region1.58e-13129
ectoderm-derived structure1.03e-12169
head1.15e-12123
ectoderm2.08e-12173
presumptive ectoderm2.08e-12173
posterior neural tube4.14e-0815
chordal neural plate4.14e-0815
tube1.01e-07194
basal ganglion5.16e-079
nuclear complex of neuraxis5.16e-079
aggregate regional part of brain5.16e-079
collection of basal ganglia5.16e-079
cerebral subcortex5.16e-079
nucleus of brain6.79e-079
neural nucleus6.79e-079
segmental subdivision of nervous system6.89e-0713


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.