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Coexpression cluster:C2893

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Full id: C2893_Fibroblast_Olfactory_heart_papillary_left_basal_glioblastoma



Phase1 CAGE Peaks

Hg19::chr7:32110008..32110058,-p4@PDE1C
Hg19::chr7:32110421..32110445,-p3@PDE1C
Hg19::chr7:32110451..32110523,-p1@PDE1C
Hg19::chr7:32111009..32111055,-p5@PDE1C


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
fibroblast4.41e-0776
Uber Anatomy
Ontology termp-valuen
neural tube3.66e-2956
neural rod3.66e-2956
future spinal cord3.66e-2956
neural keel3.66e-2956
regional part of nervous system1.61e-2753
regional part of brain1.61e-2753
adult organism2.73e-27114
central nervous system7.47e-2581
brain6.39e-2368
future brain6.39e-2368
nervous system7.50e-2389
neural plate8.65e-2382
presumptive neural plate8.65e-2382
regional part of forebrain3.76e-2241
forebrain3.76e-2241
anterior neural tube3.76e-2241
future forebrain3.76e-2241
neurectoderm7.09e-2286
telencephalon7.96e-2234
brain grey matter8.70e-2234
gray matter8.70e-2234
regional part of telencephalon2.44e-2032
cerebral hemisphere3.99e-2032
ecto-epithelium2.66e-19104
structure with developmental contribution from neural crest4.34e-19132
cerebral cortex1.21e-1525
pallium1.21e-1525
pre-chordal neural plate1.15e-1461
ectoderm-derived structure1.48e-14171
ectoderm1.48e-14171
presumptive ectoderm1.48e-14171
regional part of cerebral cortex6.83e-1422
neocortex1.08e-1220
tube6.85e-11192
anatomical conduit1.26e-10240
organ system subdivision2.42e-10223
anatomical cluster2.75e-10373
epithelium1.54e-09306
multi-tissue structure3.47e-09342
cell layer4.30e-09309
posterior neural tube3.77e-0815
chordal neural plate3.77e-0815
multi-cellular organism4.89e-08656
organ part6.99e-08218
neural nucleus1.20e-079
nucleus of brain1.20e-079
segmental subdivision of nervous system2.05e-0713
basal ganglion2.38e-079
nuclear complex of neuraxis2.38e-079
aggregate regional part of brain2.38e-079
collection of basal ganglia2.38e-079
cerebral subcortex2.38e-079


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


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
CTBP2#1488231.35850016966410.001492676882047230.00954412151855826
SUZ12#23512225.05789045553150.002325256716520610.0131874822816561



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.