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Coexpression cluster:C3962


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Full id: C3962_occipital_brain_duodenum_merkel_Neurons_retinoblastoma_parietal

Phase1 CAGE Peaks

  Short description
Hg19::chr1:26232902..26232918,- p1@STMN1
Hg19::chr1:26232930..26232945,- p1@MIR3917
Hg19::chr1:26232951..26232959,- p2@STMN1

Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset

No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset

GO IDGO nameFDR corrected p-value
GO:0007052mitotic spindle organization and biogenesis0.0115094783939715
GO:0007051spindle organization and biogenesis0.0115094783939715
GO:0007019microtubule depolymerization0.0115094783939715
GO:0031109microtubule polymerization or depolymerization0.0120098904980572
GO:0051261protein depolymerization0.0138113740727658
GO:0015631tubulin binding0.0167638054868715
GO:0000226microtubule cytoskeleton organization and biogenesis0.0218751576928899
GO:0007017microtubule-based process0.0489403037795832
GO:0000278mitotic cell cycle0.0489403037795832

Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset


Cell Type
Ontology termp-valuen
neural cell2.23e-0825
neurectodermal cell2.19e-0759
Uber Anatomy
Ontology termp-valuen
regional part of nervous system1.88e-1394
nervous system1.88e-1394
central nervous system3.62e-1282
presumptive ectoderm1.27e-10173
ectoderm-derived structure1.07e-09169
pre-chordal neural plate1.87e-0961
future brain3.37e-0969
cerebral hemisphere6.93e-0932
cerebral cortex9.23e-0925
anterior region of body3.56e-08129
craniocervical region3.56e-08129
regional part of forebrain3.91e-0841
future forebrain3.91e-0841
regional part of telencephalon3.96e-0833
neural plate4.89e-0886
presumptive neural plate4.89e-0886
gray matter5.45e-0834
brain grey matter5.45e-0834
anterior neural tube1.50e-0742
regional part of cerebral cortex1.81e-0722
neural tube6.21e-0757
neural rod6.21e-0757
future spinal cord6.21e-0757
neural keel6.21e-0757
Ontology termp-valuen
disease of cellular proliferation4.33e-21239
hematologic cancer5.75e-2051
immune system cancer5.75e-2051
organ system cancer5.06e-17137
myeloid leukemia4.70e-1431

Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs

Jaspar motifs

Novel motifs

JASPAR motifs



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset


No analysis results for this cluster

Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.

link to data source

This analysis result is provided for C0 - C305 clusters.