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Coexpression cluster:C1818

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Full id: C1818_brain_temporal_occipital_diencephalon_cerebellum_olfactory_cerebral



Phase1 CAGE Peaks

Hg19::chr19:36367501..36367512,-p@chr19:36367501..36367512
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Hg19::chr19:42470973..42470984,+p4@CU679344
Hg19::chr2:131769317..131769328,+p13@ARHGEF4
Hg19::chr9:120173722..120173724,-p@chr9:120173722..120173724
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Hg19::chr9:34523008..34523018,-p5@ENHO


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:0019904protein domain specific binding0.0265630519251148
GO:0005089Rho guanyl-nucleotide exchange factor activity0.0265630519251148
GO:0035023regulation of Rho protein signal transduction0.0265630519251148
GO:0005088Ras guanyl-nucleotide exchange factor activity0.0265630519251148
GO:0007266Rho protein signal transduction0.0265630519251148
GO:0005085guanyl-nucleotide exchange factor activity0.0334864005651713
GO:0046578regulation of Ras protein signal transduction0.0334864005651713
GO:0007265Ras protein signal transduction0.0334864005651713
GO:0005083small GTPase regulator activity0.0334864005651713
GO:0051056regulation of small GTPase mediated signal transduction0.0334864005651713
GO:0030695GTPase regulator activity0.0449568093510163
GO:0009966regulation of signal transduction0.0470976097963028
GO:0007264small GTPase mediated signal transduction0.0474961280330408



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
neural cell6.81e-0825
neuron1.33e-076
neuroblast1.33e-076
electrically signaling cell1.33e-076
neuronal stem cell5.26e-078
Uber Anatomy
Ontology termp-valuen
central nervous system6.08e-5582
regional part of nervous system6.77e-5494
nervous system6.77e-5494
neural tube1.58e-4757
neural rod1.58e-4757
future spinal cord1.58e-4757
neural keel1.58e-4757
brain8.96e-4469
future brain8.96e-4469
regional part of brain1.55e-4259
regional part of forebrain1.31e-3941
forebrain1.31e-3941
future forebrain1.31e-3941
anterior neural tube2.58e-3842
telencephalon4.00e-3734
gray matter7.29e-3734
brain grey matter7.29e-3734
regional part of telencephalon7.75e-3633
cerebral hemisphere9.00e-3532
neural plate1.72e-3486
presumptive neural plate1.72e-3486
neurectoderm2.24e-3390
pre-chordal neural plate1.65e-2761
ectoderm-derived structure4.82e-27169
cerebral cortex5.29e-2725
pallium5.29e-2725
ectoderm1.02e-26173
presumptive ectoderm1.02e-26173
adult organism1.55e-25115
regional part of cerebral cortex3.15e-2522
head5.65e-24123
anterior region of body1.75e-23129
craniocervical region1.75e-23129
neocortex6.11e-2320
tube3.43e-13194
nucleus of brain3.30e-119
neural nucleus3.30e-119
basal ganglion4.29e-119
nuclear complex of neuraxis4.29e-119
aggregate regional part of brain4.29e-119
collection of basal ganglia4.29e-119
cerebral subcortex4.29e-119
posterior neural tube2.74e-1015
chordal neural plate2.74e-1015
organism subdivision4.15e-10365
cell layer1.31e-09312
epithelium1.73e-09309
anatomical conduit3.33e-09241
telencephalic nucleus4.32e-097
gyrus1.13e-086
embryo3.66e-08612
temporal lobe4.67e-087
occipital lobe2.10e-075
parietal lobe2.36e-075
segmental subdivision of hindbrain2.36e-0712
hindbrain2.36e-0712
presumptive hindbrain2.36e-0712
multi-cellular organism2.79e-07659
anatomical cluster4.20e-07286
limbic system4.67e-075
anatomical system6.14e-07625
anatomical group7.27e-07626


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.