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Coexpression cluster:C1304

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Full id: C1304_pons_medial_frontal_paracentral_hippocampus_nucleus_insula



Phase1 CAGE Peaks

Hg19::chr10:134760770..134760781,-p@chr10:134760770..134760781
-
Hg19::chr16:47920797..47920838,-p1@uc002eex.1
Hg19::chr3:120628150..120628164,+p4@STXBP5L
Hg19::chr4:86068867..86068880,+p@chr4:86068867..86068880
+
Hg19::chr4:86068886..86068893,+p@chr4:86068886..86068893
+
Hg19::chrX:85969610..85969619,+p4@DACH2


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


No GOStat results

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 organism2.62e-57115
neural tube2.69e-5157
neural rod2.69e-5157
future spinal cord2.69e-5157
neural keel2.69e-5157
central nervous system1.59e-4482
regional part of brain9.69e-4459
anterior neural tube3.54e-4142
brain5.45e-4169
future brain5.45e-4169
regional part of forebrain2.81e-4041
forebrain2.81e-4041
future forebrain2.81e-4041
neural plate2.89e-3986
presumptive neural plate2.89e-3986
regional part of nervous system1.30e-3894
nervous system1.30e-3894
neurectoderm9.54e-3890
anterior region of body3.71e-33129
craniocervical region3.71e-33129
telencephalon2.63e-3234
gray matter2.98e-3234
brain grey matter2.98e-3234
head2.17e-31123
regional part of telencephalon5.35e-3133
cerebral hemisphere4.50e-3032
pre-chordal neural plate1.49e-2961
ectoderm-derived structure4.91e-28169
ectoderm1.52e-27173
presumptive ectoderm1.52e-27173
regional part of cerebral cortex1.02e-2522
neocortex3.31e-2320
cerebral cortex9.56e-2225
pallium9.56e-2225
basal ganglion3.68e-129
nuclear complex of neuraxis3.68e-129
aggregate regional part of brain3.68e-129
collection of basal ganglia3.68e-129
cerebral subcortex3.68e-129
nucleus of brain3.77e-129
neural nucleus3.77e-129
organism subdivision8.61e-12365
posterior neural tube4.07e-1115
chordal neural plate4.07e-1115
brainstem1.15e-108
organ part3.93e-10219
anatomical conduit4.59e-10241
telencephalic nucleus8.93e-107
gyrus2.28e-096
diencephalon2.36e-097
future diencephalon2.36e-097
tube4.01e-09194
anatomical cluster4.39e-09286
segmental subdivision of nervous system6.18e-0913
epithelium7.50e-09309
cell layer1.50e-08312
temporal lobe1.69e-087
multi-tissue structure3.59e-08347
segmental subdivision of hindbrain5.71e-0812
hindbrain5.71e-0812
presumptive hindbrain5.71e-0812
limbic system8.08e-085
parietal lobe2.92e-075
occipital lobe7.52e-075


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.