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Coexpression cluster:C3215

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Full id: C3215_parotid_mesothelioma_occipital_astrocytoma_amygdala_pituitary_frontal



Phase1 CAGE Peaks

Hg19::chr11:98891671..98891695,+p2@CNTN5
Hg19::chr11:98891735..98891753,+p1@CNTN5
Hg19::chr11:98891797..98891806,+p7@CNTN5


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>


Cell Type
Ontology termp-valuen
mesothelial cell2.49e-0719
Uber Anatomy
Ontology termp-valuen
regional part of nervous system2.02e-4194
nervous system2.02e-4194
brain4.28e-3969
future brain4.28e-3969
central nervous system1.44e-3882
neural tube6.66e-3857
neural rod6.66e-3857
future spinal cord6.66e-3857
neural keel6.66e-3857
regional part of brain2.75e-3759
regional part of forebrain2.13e-3241
forebrain2.13e-3241
future forebrain2.13e-3241
anterior neural tube2.75e-3142
neural plate5.22e-3186
presumptive neural plate5.22e-3186
cerebral hemisphere4.18e-3032
neurectoderm1.01e-2990
telencephalon1.18e-2934
gray matter1.65e-2934
brain grey matter1.65e-2934
regional part of telencephalon1.56e-2833
anterior region of body4.17e-27129
craniocervical region4.17e-27129
head1.05e-26123
regional part of cerebral cortex2.83e-2622
adult organism4.36e-26115
pre-chordal neural plate6.20e-2661
neocortex2.66e-2420
cerebral cortex7.16e-2425
pallium7.16e-2425
ectoderm-derived structure4.97e-23169
ectoderm1.44e-22173
presumptive ectoderm1.44e-22173
temporal lobe7.00e-107
tube3.49e-09194
anatomical cluster4.08e-09286
organ part5.89e-09219
multi-tissue structure1.16e-08347
epithelium2.07e-08309
organism subdivision2.62e-08365
anatomical conduit2.93e-08241
cell layer4.26e-08312
gyrus4.92e-086
posterior neural tube6.09e-0815
chordal neural plate6.09e-0815
basal ganglion1.22e-079
nuclear complex of neuraxis1.22e-079
aggregate regional part of brain1.22e-079
collection of basal ganglia1.22e-079
cerebral subcortex1.22e-079
occipital lobe3.38e-075
nucleus of brain3.69e-079
neural nucleus3.69e-079
segmental subdivision of hindbrain4.77e-0712
hindbrain4.77e-0712
presumptive hindbrain4.77e-0712
parietal lobe5.58e-075
limbic system6.36e-075
embryo9.90e-07612


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.