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Coexpression cluster:C1559

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Full id: C1559_large_amygdala_pineal_temporal_medial_olfactory_cerebellum



Phase1 CAGE Peaks

Hg19::chr10:105253535..105253604,+p5@NEURL
Hg19::chr10:105253611..105253627,+p10@NEURL
Hg19::chr10:105253790..105253822,+p19@NEURL
Hg19::chr10:105254031..105254098,+p2@NEURL
Hg19::chr10:105254104..105254135,+p6@NEURL


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
neural tube8.62e-3657
neural rod8.62e-3657
future spinal cord8.62e-3657
neural keel8.62e-3657
adult organism2.96e-34115
regional part of forebrain2.57e-3141
forebrain2.57e-3141
future forebrain2.57e-3141
central nervous system4.31e-3182
anterior neural tube3.71e-3042
regional part of brain3.48e-2959
brain7.48e-2869
future brain7.48e-2869
regional part of nervous system1.53e-2794
nervous system1.53e-2794
neural plate1.84e-2686
presumptive neural plate1.84e-2686
telencephalon7.43e-2634
gray matter8.53e-2634
brain grey matter8.53e-2634
neurectoderm4.80e-2590
cerebral hemisphere5.91e-2532
regional part of telencephalon6.26e-2533
regional part of cerebral cortex9.69e-2322
pre-chordal neural plate6.51e-2161
neocortex6.60e-2120
cerebral cortex7.48e-1925
pallium7.48e-1925
ectoderm-derived structure1.23e-15169
ectoderm3.93e-15173
presumptive ectoderm3.93e-15173
head9.07e-15123
anterior region of body1.38e-14129
craniocervical region1.38e-14129
organ part3.09e-13219
temporal lobe5.65e-097
basal ganglion6.46e-099
nuclear complex of neuraxis6.46e-099
aggregate regional part of brain6.46e-099
collection of basal ganglia6.46e-099
cerebral subcortex6.46e-099
nucleus of brain2.16e-089
neural nucleus2.16e-089
organ5.55e-08511
tube3.00e-07194
gyrus3.40e-076
posterior neural tube4.06e-0715
chordal neural plate4.06e-0715
telencephalic nucleus6.02e-077
diencephalon7.61e-077
future diencephalon7.61e-077
Disease
Ontology termp-valuen
carcinoma1.95e-07106


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.