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|gostat_on_coexpression_clusters=GO:0005777!peroxisome!0.0499682941000963!4591$GO:0042579!microbody!0.0499682941000963!4591
|gostat_on_coexpression_clusters=GO:0005777!peroxisome!0.0499682941000963!4591$GO:0042579!microbody!0.0499682941000963!4591
|id=C3659
|id=C3659
|ontology_enrichment_celltype=
|ontology_enrichment_disease=DOID:0050687!8.19e-12!143;DOID:305!3.80e-10!106
|ontology_enrichment_uberon=UBERON:0005743!5.75e-32!86;UBERON:0001017!2.73e-31!82;UBERON:0000073!3.00e-31!94;UBERON:0001016!3.00e-31!94;UBERON:0001049!6.31e-27!57;UBERON:0005068!6.31e-27!57;UBERON:0006241!6.31e-27!57;UBERON:0007135!6.31e-27!57;UBERON:0000955!1.83e-26!69;UBERON:0006238!1.83e-26!69;UBERON:0002346!2.58e-23!90;UBERON:0002780!4.83e-23!41;UBERON:0001890!4.83e-23!41;UBERON:0006240!4.83e-23!41;UBERON:0002616!4.93e-23!59;UBERON:0003075!7.66e-23!86;UBERON:0007284!7.66e-23!86;UBERON:0003080!1.88e-22!42;UBERON:0000924!3.63e-21!173;UBERON:0006601!3.63e-21!173;UBERON:0004121!1.49e-20!169;UBERON:0001893!7.07e-20!34;UBERON:0002020!7.15e-20!34;UBERON:0003528!7.15e-20!34;UBERON:0001869!1.36e-19!32;UBERON:0002791!3.17e-19!33;UBERON:0003056!4.32e-18!61;UBERON:0000153!2.50e-17!129;UBERON:0007811!2.50e-17!129;UBERON:0000033!4.57e-17!123;UBERON:0000956!2.11e-15!25;UBERON:0000203!2.11e-15!25;UBERON:0002619!8.81e-15!22;UBERON:0001950!1.41e-13!20;UBERON:0007023!2.29e-13!115;UBERON:0000025!5.21e-08!194;UBERON:0000475!3.12e-07!365;UBERON:0000481!7.73e-07!347
}}
}}

Revision as of 14:39, 21 May 2012


Full id: C3659_breast_MCF7_cerebellum_occipital_pons_frontal_paracentral



Phase1 CAGE Peaks

Hg19::chr17:57184170..57184257,-p1@TRIM37
Hg19::chr17:57184260..57184271,-p6@TRIM37
Hg19::chr20:49411484..49411518,+p2@BCAS4


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:0005777peroxisome0.0499682941000963
GO:0042579microbody0.0499682941000963



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
central nervous system2.73e-3182
regional part of nervous system3.00e-3194
nervous system3.00e-3194
neural tube6.31e-2757
neural rod6.31e-2757
future spinal cord6.31e-2757
neural keel6.31e-2757
brain1.83e-2669
future brain1.83e-2669
neurectoderm2.58e-2390
regional part of forebrain4.83e-2341
forebrain4.83e-2341
future forebrain4.83e-2341
regional part of brain4.93e-2359
neural plate7.66e-2386
presumptive neural plate7.66e-2386
anterior neural tube1.88e-2242
ectoderm3.63e-21173
presumptive ectoderm3.63e-21173
ectoderm-derived structure1.49e-20169
telencephalon7.07e-2034
gray matter7.15e-2034
brain grey matter7.15e-2034
cerebral hemisphere1.36e-1932
regional part of telencephalon3.17e-1933
pre-chordal neural plate4.32e-1861
anterior region of body2.50e-17129
craniocervical region2.50e-17129
head4.57e-17123
cerebral cortex2.11e-1525
pallium2.11e-1525
regional part of cerebral cortex8.81e-1522
neocortex1.41e-1320
adult organism2.29e-13115
tube5.21e-08194
organism subdivision3.12e-07365
multi-tissue structure7.73e-07347
Disease
Ontology termp-valuen
cell type cancer8.19e-12143
carcinoma3.80e-10106


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.