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Coexpression cluster:C1166

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Full id: C1166_cerebellum_occipital_middle_pineal_parietal_thalamus_acute



Phase1 CAGE Peaks

Hg19::chr12:132640129..132640150,+p@chr12:132640129..132640150
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Hg19::chr1:7552597..7552608,+p@chr1:7552597..7552608
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Hg19::chr3:129089024..129089057,-p@chr3:129089024..129089057
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Hg19::chr3:129089229..129089276,-p@chr3:129089229..129089276
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Hg19::chr3:129089385..129089423,-p@chr3:129089385..129089423
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Hg19::chr3:129089547..129089586,-p@chr3:129089547..129089586
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Hg19::chr3:129089810..129089831,-p@chr3:129089810..129089831
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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>cell_data<br>uberon_data<br>disease_data<br>


Uber Anatomy
Ontology termp-valuen
neural tube1.97e-2357
neural rod1.97e-2357
future spinal cord1.97e-2357
neural keel1.97e-2357
central nervous system2.17e-2382
adult organism5.66e-22115
brain1.15e-2169
future brain1.15e-2169
regional part of nervous system3.00e-2194
nervous system3.00e-2194
regional part of forebrain9.75e-2141
forebrain9.75e-2141
future forebrain9.75e-2141
anterior neural tube4.21e-2042
regional part of brain3.29e-1859
gray matter9.94e-1834
brain grey matter9.94e-1834
telencephalon1.36e-1734
regional part of telencephalon4.20e-1733
cerebral hemisphere2.39e-1632
neurectoderm1.83e-1590
neural plate3.04e-1486
presumptive neural plate3.04e-1486
regional part of cerebral cortex1.25e-1322
cerebral cortex1.21e-1225
pallium1.21e-1225
neocortex2.32e-1220
pre-chordal neural plate1.99e-1061
anterior region of body2.19e-08129
craniocervical region2.19e-08129
head5.22e-08123
ectoderm5.80e-08173
presumptive ectoderm5.80e-08173
ectoderm-derived structure3.59e-07169
Disease
Ontology termp-valuen
cancer1.45e-13235
disease of cellular proliferation1.80e-12239
cell type cancer1.25e-09143
organ system cancer2.03e-07137
carcinoma6.18e-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.