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Coexpression cluster:C2251

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Full id: C2251_adipose_spinal_substantia_medulla_corpus_Anulus_tenocyte



Phase1 CAGE Peaks

Hg19::chr13:113633442..113633469,+p7@MCF2L
Hg19::chr3:16216111..16216120,+p4@GALNTL2
Hg19::chr3:16216137..16216203,+p1@GALNTL2
Hg19::chr3:16216210..16216221,+p2@GALNTL2


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
non-terminally differentiated cell3.65e-09180
fibroblast4.68e-0975
skin fibroblast8.92e-0723
Uber Anatomy
Ontology termp-valuen
adult organism1.75e-45115
neural tube2.31e-2657
neural rod2.31e-2657
future spinal cord2.31e-2657
neural keel2.31e-2657
regional part of brain3.06e-2359
anatomical cluster1.10e-21286
neural plate5.52e-2186
presumptive neural plate5.52e-2186
organism subdivision2.24e-20365
brain4.72e-2069
future brain4.72e-2069
anterior neural tube2.95e-1942
anatomical conduit3.49e-19241
central nervous system4.36e-1982
neurectoderm1.39e-1890
regional part of forebrain1.47e-1841
forebrain1.47e-1841
future forebrain1.47e-1841
anterior region of body1.10e-17129
craniocervical region1.10e-17129
head1.32e-17123
regional part of nervous system1.37e-1694
nervous system1.37e-1694
multi-cellular organism1.47e-15659
tube1.96e-15194
gray matter2.04e-1534
brain grey matter2.04e-1534
telencephalon2.24e-1534
multi-tissue structure6.51e-15347
regional part of telencephalon9.05e-1533
pre-chordal neural plate4.04e-1461
cerebral hemisphere5.95e-1432
cell layer6.61e-14312
anatomical system6.92e-14625
epithelium8.81e-14309
anatomical group1.10e-13626
ectoderm-derived structure7.47e-12169
regional part of cerebral cortex3.21e-1122
ectoderm9.46e-11173
presumptive ectoderm9.46e-11173
neocortex6.46e-1020
cerebral cortex7.41e-1025
pallium7.41e-1025
organ3.39e-09511
somite2.70e-0883
paraxial mesoderm2.70e-0883
presomitic mesoderm2.70e-0883
presumptive segmental plate2.70e-0883
trunk paraxial mesoderm2.70e-0883
presumptive paraxial mesoderm2.70e-0883
tissue2.75e-08787
posterior neural tube2.82e-0815
chordal neural plate2.82e-0815
nucleus of brain1.91e-079
neural nucleus1.91e-079
brainstem1.91e-078
basal ganglion3.10e-079
nuclear complex of neuraxis3.10e-079
aggregate regional part of brain3.10e-079
collection of basal ganglia3.10e-079
cerebral subcortex3.10e-079
organ part3.44e-07219
muscle tissue4.91e-0763
musculature4.91e-0763
musculature of body4.91e-0763
embryonic structure5.37e-07605
developing anatomical structure5.37e-07605
embryo7.52e-07612
germ layer7.72e-07604
embryonic tissue7.72e-07604
presumptive structure7.72e-07604
epiblast (generic)7.72e-07604
segmental subdivision of nervous system7.82e-0713


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
EP300#203335.08045629466740.01144298405398240.0418758124536201
RAD21#588537.766275421592250.0033411193858720.017264158299084



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.