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Coexpression cluster:C1743

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Full id: C1743_cerebellum_pituitary_pineal_lung_parietal_occipital_CD4



Phase1 CAGE Peaks

Hg19::chr15:57025759..57025811,-p2@ZNF280D
Hg19::chr15:77197655..77197716,-p1@SCAPER
Hg19::chr18:34409075..34409100,+p1@KIAA1328
Hg19::chr2:113033164..113033219,+p1@ZC3H6
Hg19::chr5:180688105..180688162,-p1@TRIM52


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


GO IDGO nameFDR corrected p-value
GO:0008270zinc ion binding0.00757246536841732
GO:0046914transition metal ion binding0.00757246536841732
GO:0043169cation binding0.0123098686752955
GO:0046872metal ion binding0.0123098686752955
GO:0043167ion binding0.0123098686752955



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><br>


Uber Anatomy
Ontology termp-valuen
adult organism1.68e-46115
neural tube1.05e-2657
neural rod1.05e-2657
future spinal cord1.05e-2657
neural keel1.05e-2657
central nervous system5.24e-2482
regional part of nervous system8.56e-2494
nervous system8.56e-2494
anterior neural tube1.33e-2242
regional part of forebrain2.79e-2241
forebrain2.79e-2241
future forebrain2.79e-2241
brain3.76e-2269
future brain3.76e-2269
regional part of brain5.28e-2259
gray matter4.28e-1834
brain grey matter4.28e-1834
telencephalon6.04e-1834
regional part of telencephalon1.66e-1733
neurectoderm1.69e-1790
cerebral hemisphere9.19e-1732
neural plate1.19e-1686
presumptive neural plate1.19e-1686
regional part of cerebral cortex3.71e-1322
cerebral cortex8.51e-1325
pallium8.51e-1325
pre-chordal neural plate1.86e-1261
neocortex4.22e-1220
anterior region of body4.80e-12129
craniocervical region4.80e-12129
ectoderm2.71e-11173
presumptive ectoderm2.71e-11173
ectoderm-derived structure1.36e-10169
head2.46e-10123
nucleus of brain7.45e-079
neural nucleus7.45e-079
basal ganglion8.00e-079
nuclear complex of neuraxis8.00e-079
aggregate regional part of brain8.00e-079
collection of basal ganglia8.00e-079
cerebral subcortex8.00e-079


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.