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Coexpression cluster:C1966

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Full id: C1966_occipital_brain_temporal_parietal_skeletal_medial_duodenum



Phase1 CAGE Peaks

Hg19::chr5:88017238..88017253,-p@chr5:88017238..88017253
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Hg19::chr5:88017337..88017357,-p@chr5:88017337..88017357
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Hg19::chr5:88018378..88018393,-p@chr5:88018378..88018393
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Hg19::chr5:88119627..88119656,-p14@MEF2C
Hg19::chr5:88119715..88119757,-p11@MEF2C


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>disease_data<br>


Uber Anatomy
Ontology termp-valuen
adult organism5.24e-26114
neocortex3.28e-2220
regional part of cerebral cortex5.90e-2222
telencephalon2.10e-2134
cerebral hemisphere3.06e-2032
regional part of telencephalon5.11e-2032
brain grey matter1.19e-1934
gray matter1.19e-1934
regional part of forebrain1.15e-1841
forebrain1.15e-1841
anterior neural tube1.15e-1841
future forebrain1.15e-1841
cerebral cortex1.86e-1825
pallium1.86e-1825
regional part of nervous system4.98e-1853
regional part of brain4.98e-1853
neural tube1.13e-1756
neural rod1.13e-1756
future spinal cord1.13e-1756
neural keel1.13e-1756
central nervous system1.10e-1481
brain1.81e-1468
future brain1.81e-1468
nervous system6.68e-1289
neural plate1.46e-1082
presumptive neural plate1.46e-1082
neurectoderm2.48e-1086
pre-chordal neural plate4.85e-1061
gyrus1.98e-086
occipital lobe2.42e-075
parietal lobe3.50e-075
ecto-epithelium3.59e-07104
temporal lobe7.32e-076
structure with developmental contribution from neural crest7.96e-07132
Disease
Ontology termp-valuen
hematologic cancer3.27e-0951
immune system cancer3.27e-0951
myeloid leukemia8.52e-0831
leukemia1.06e-0739


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)

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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.