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Coexpression cluster:C3253

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Full id: C3253_normal_pineal_insula_Mesothelial_Astrocyte_temporal_occipital



Phase1 CAGE Peaks

Hg19::chr12:130388539..130388557,-p2@TMEM132D
Hg19::chr12:130388563..130388592,-p1@TMEM132D
Hg19::chr12:130388744..130388782,-p@chr12:130388744..130388782
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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>cell_data<br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
regional part of nervous system1.47e-5594
nervous system1.47e-5594
central nervous system5.35e-5282
neural plate8.65e-5086
presumptive neural plate8.65e-5086
pre-chordal neural plate1.41e-4861
regional part of brain4.81e-4759
neurectoderm2.23e-4690
neural tube3.36e-4657
neural rod3.36e-4657
future spinal cord3.36e-4657
neural keel3.36e-4657
brain6.46e-4569
future brain6.46e-4569
regional part of forebrain2.24e-4241
forebrain2.24e-4241
future forebrain2.24e-4241
anterior neural tube5.63e-4142
ectoderm-derived structure6.07e-38169
head6.56e-38123
telencephalon1.23e-3634
ectoderm2.72e-36173
presumptive ectoderm2.72e-36173
gray matter2.85e-3634
brain grey matter2.85e-3634
anterior region of body8.74e-36129
craniocervical region8.74e-36129
regional part of telencephalon1.78e-3533
cerebral hemisphere2.09e-3532
cerebral cortex1.39e-2825
pallium1.39e-2825
regional part of cerebral cortex3.80e-2522
neocortex8.97e-2420
adult organism1.02e-13115
organism subdivision3.80e-11365
cell layer7.68e-11312
visual system1.07e-1021
vasculature of head5.67e-1011
vasculature of organ5.67e-1011
eye5.99e-1020
epithelium6.34e-10309
temporal lobe6.87e-107
basal ganglion8.93e-109
nuclear complex of neuraxis8.93e-109
aggregate regional part of brain8.93e-109
collection of basal ganglia8.93e-109
cerebral subcortex8.93e-109
face9.50e-1021
organ part1.60e-09219
camera-type eye1.79e-0919
simple eye1.79e-0919
ocular region1.79e-0919
optic cup1.79e-0919
eye primordium1.79e-0919
optic vesicle1.79e-0919
nucleus of brain4.20e-099
neural nucleus4.20e-099
pigment epithelium of eye1.03e-0811
sensory system1.03e-0824
entire sense organ system1.03e-0824
gyrus2.65e-086
sense organ4.98e-0823
telencephalic nucleus1.13e-077
tube1.52e-07194
posterior neural tube2.53e-0715
chordal neural plate2.53e-0715
vasculature of eye3.05e-076
uvea3.05e-076
diencephalon4.15e-077
future diencephalon4.15e-077
occipital lobe6.53e-075
parietal lobe9.80e-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.