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Coexpression cluster:C2105

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Full id: C2105_parietal_amygdala_thalamus_medial_cerebellum_hippocampus_caudate



Phase1 CAGE Peaks

Hg19::chr11:120746761..120746773,+p@chr11:120746761..120746773
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Hg19::chr14:33197436..33197439,+p@chr14:33197436..33197439
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Hg19::chr5:58149845..58149856,+p@chr5:58149845..58149856
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Hg19::chr8:26486520..26486538,+p@chr8:26486520..26486538
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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><br>


Uber Anatomy
Ontology termp-valuen
neural tube8.26e-3957
neural rod8.26e-3957
future spinal cord8.26e-3957
neural keel8.26e-3957
central nervous system3.22e-3682
brain3.08e-3469
future brain3.08e-3469
regional part of nervous system2.81e-3394
nervous system2.81e-3394
regional part of brain2.10e-3259
anterior neural tube2.37e-3142
regional part of forebrain8.04e-3141
forebrain8.04e-3141
future forebrain8.04e-3141
adult organism1.11e-30115
neurectoderm2.71e-2690
neural plate1.09e-2586
presumptive neural plate1.09e-2586
gray matter1.50e-2534
brain grey matter1.50e-2534
telencephalon2.08e-2534
regional part of telencephalon1.09e-2433
cerebral hemisphere8.49e-2432
pre-chordal neural plate7.80e-2061
cerebral cortex2.32e-1825
pallium2.32e-1825
regional part of cerebral cortex2.11e-1722
anterior region of body2.48e-17129
craniocervical region2.48e-17129
head3.60e-17123
ectoderm4.92e-17173
presumptive ectoderm4.92e-17173
ectoderm-derived structure2.33e-16169
neocortex1.04e-1520
basal ganglion1.04e-089
nuclear complex of neuraxis1.04e-089
aggregate regional part of brain1.04e-089
collection of basal ganglia1.04e-089
cerebral subcortex1.04e-089
nucleus of brain1.15e-089
neural nucleus1.15e-089
posterior neural tube1.21e-0815
chordal neural plate1.21e-0815
brainstem1.75e-078
segmental subdivision of nervous system4.09e-0713
telencephalic nucleus4.66e-077
diencephalon8.40e-077
future diencephalon8.40e-077


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.