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Coexpression cluster:C4029

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Full id: C4029_Mast_tubular_mature_duodenum_brain_temporal_mesodermal



Phase1 CAGE Peaks

Hg19::chr20:34680580..34680591,+p10@EPB41L1
Hg19::chr20:34680595..34680608,+p5@EPB41L1
Hg19::chr20:34680623..34680655,+p2@EPB41L1


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>


Cell Type
Ontology termp-valuen
epithelial cell9.46e-09254
Uber Anatomy
Ontology termp-valuen
neural tube1.45e-2057
neural rod1.45e-2057
future spinal cord1.45e-2057
neural keel1.45e-2057
adult organism5.24e-20115
central nervous system8.65e-2082
brain2.48e-1969
future brain2.48e-1969
regional part of brain1.38e-1859
anatomical cluster2.20e-17286
neural plate5.41e-1786
presumptive neural plate5.41e-1786
regional part of nervous system8.95e-1794
nervous system8.95e-1794
anatomical conduit1.13e-16241
anterior neural tube8.08e-1642
regional part of forebrain1.17e-1541
forebrain1.17e-1541
future forebrain1.17e-1541
head1.90e-15123
gray matter2.46e-1534
brain grey matter2.46e-1534
neurectoderm3.09e-1590
telencephalon6.39e-1534
cerebral hemisphere9.76e-1532
anterior region of body1.48e-14129
craniocervical region1.48e-14129
tube1.90e-14194
regional part of telencephalon2.02e-1433
regional part of cerebral cortex7.28e-1422
organ2.00e-13511
organ part2.40e-13219
neocortex5.79e-1320
pre-chordal neural plate2.93e-1261
multi-tissue structure3.92e-11347
multi-cellular organism4.68e-11659
cerebral cortex6.38e-1125
pallium6.38e-1125
anatomical system1.03e-10625
anatomical group1.32e-10626
ectoderm-derived structure3.10e-10169
organism subdivision9.81e-10365
epithelium1.59e-09309
cell layer1.93e-09312
ectoderm2.06e-09173
presumptive ectoderm2.06e-09173
embryo2.84e-09612
embryonic structure5.67e-09605
developing anatomical structure5.67e-09605
germ layer8.84e-09604
embryonic tissue8.84e-09604
presumptive structure8.84e-09604
epiblast (generic)8.84e-09604
Disease
Ontology termp-valuen
carcinoma9.10e-09106


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


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.