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Coexpression cluster:C3258

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Full id: C3258_Neutrophils_Eosinophils_caudate_putamen_breast_oral_CD14



Phase1 CAGE Peaks

Hg19::chr12:132379160..132379201,+p1@ULK1
Hg19::chr12:132379210..132379234,+p2@ULK1
Hg19::chr12:132379245..132379256,+p4@ULK1


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>


Uber Anatomy
Ontology termp-valuen
adult organism1.05e-24115
neural tube2.01e-1257
neural rod2.01e-1257
future spinal cord2.01e-1257
neural keel2.01e-1257
central nervous system5.02e-1282
regional part of forebrain9.88e-1241
forebrain9.88e-1241
future forebrain9.88e-1241
anterior neural tube1.11e-1142
regional part of brain2.58e-1159
brain2.96e-1169
future brain2.96e-1169
neural plate3.54e-1086
presumptive neural plate3.54e-1086
neurectoderm7.20e-1090
multi-cellular organism2.59e-09659
telencephalon2.69e-0934
regional part of nervous system2.85e-0994
nervous system2.85e-0994
pre-chordal neural plate2.90e-0961
cerebral hemisphere3.35e-0932
gray matter4.44e-0934
brain grey matter4.44e-0934
regional part of telencephalon5.04e-0933
regional part of cerebral cortex7.76e-0822
neocortex2.69e-0720
organ2.77e-07511
anterior region of body6.47e-07129
craniocervical region6.47e-07129


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.