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Coexpression cluster:C4240

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Full id: C4240_Dendritic_left_mature_heart_medial_occipital_Macrophage



Phase1 CAGE Peaks

Hg19::chr2:63816087..63816124,+p1@MDH1
Hg19::chr2:63816126..63816152,+p2@MDH1
Hg19::chr2:63816295..63816356,+p4@MDH1


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><br>uberon_data<br>disease_data<br>


Uber Anatomy
Ontology termp-valuen
central nervous system2.71e-1682
brain5.07e-1569
future brain5.07e-1569
neural tube1.68e-1457
neural rod1.68e-1457
future spinal cord1.68e-1457
neural keel1.68e-1457
regional part of nervous system6.10e-1494
nervous system6.10e-1494
regional part of brain9.44e-1459
regional part of forebrain1.88e-1341
forebrain1.88e-1341
future forebrain1.88e-1341
anterior neural tube1.35e-1242
cerebral hemisphere9.01e-1232
gray matter1.12e-1134
brain grey matter1.12e-1134
telencephalon2.85e-1134
regional part of telencephalon1.09e-1033
neural plate4.55e-1086
presumptive neural plate4.55e-1086
regional part of cerebral cortex1.05e-0922
neurectoderm1.75e-0990
cerebral cortex6.29e-0925
pallium6.29e-0925
neocortex8.10e-0920
head2.12e-08123
anterior region of body2.53e-08129
craniocervical region2.53e-08129
adult organism5.84e-08115
ectoderm-derived structure1.08e-07169
pre-chordal neural plate1.21e-0761
ectoderm2.03e-07173
presumptive ectoderm2.03e-07173
Disease
Ontology termp-valuen
disease of cellular proliferation2.89e-08239
cancer1.22e-07235


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.