Personal tools

Difference between revisions of "Coexpression cluster:C1461"

From FANTOM5_SSTAR

Jump to: navigation, search
(Created page with "{{Coexpression_clusters |full_id=C1461_medulla_locus_globus_spinal_mesothelioma_kidney_testicular |id=C1461 }}")
 
Line 2: Line 2:
 
|full_id=C1461_medulla_locus_globus_spinal_mesothelioma_kidney_testicular
 
|full_id=C1461_medulla_locus_globus_spinal_mesothelioma_kidney_testicular
 
|id=C1461
 
|id=C1461
 +
|ontology_enrichment_celltype=
 +
|ontology_enrichment_disease=DOID:305!9.48e-15!106;DOID:0050687!3.06e-10!143;DOID:14566!1.27e-07!239;DOID:162!2.85e-07!235
 +
|ontology_enrichment_uberon=UBERON:0001049!2.00e-18!57;UBERON:0005068!2.00e-18!57;UBERON:0006241!2.00e-18!57;UBERON:0007135!2.00e-18!57;UBERON:0000025!8.22e-18!194;UBERON:0007023!1.11e-17!115;UBERON:0004111!2.41e-16!241;UBERON:0002616!1.59e-15!59;UBERON:0000955!2.68e-15!69;UBERON:0006238!2.68e-15!69;UBERON:0000477!2.87e-15!286;UBERON:0002780!3.35e-14!41;UBERON:0001890!3.35e-14!41;UBERON:0006240!3.35e-14!41;UBERON:0001017!4.25e-14!82;UBERON:0003080!2.28e-13!42;UBERON:0005743!6.15e-13!86;UBERON:0003075!3.41e-12!86;UBERON:0007284!3.41e-12!86;UBERON:0000073!2.08e-11!94;UBERON:0001016!2.08e-11!94;UBERON:0002020!5.46e-11!34;UBERON:0003528!5.46e-11!34;UBERON:0002346!5.78e-11!90;UBERON:0000481!1.18e-10!347;UBERON:0001893!1.34e-10!34;UBERON:0002791!2.37e-10!33;UBERON:0001869!1.85e-09!32;UBERON:0000062!8.47e-09!511;UBERON:0000119!3.45e-08!312;UBERON:0000483!3.71e-08!309;UBERON:0003056!4.93e-08!61;UBERON:0000033!1.40e-07!123;UBERON:0002308!1.91e-07!9;UBERON:0000125!1.91e-07!9;UBERON:0002619!2.36e-07!22;UBERON:0000475!2.82e-07!365;UBERON:0000466!3.27e-07!126;UBERON:0002420!3.36e-07!9;UBERON:0007245!3.36e-07!9;UBERON:0010009!3.36e-07!9;UBERON:0010011!3.36e-07!9;UBERON:0000454!3.36e-07!9;UBERON:0004921!3.61e-07!129;UBERON:0004185!3.61e-07!129;UBERON:0000153!4.43e-07!129;UBERON:0007811!4.43e-07!129;UBERON:0001048!5.18e-07!168
 
}}
 
}}

Revision as of 05:11, 21 May 2012


Full id: C1461_medulla_locus_globus_spinal_mesothelioma_kidney_testicular



Phase1 CAGE Peaks

  Short description
Hg19::chr1:110546475..110546482,+ p27@AHCYL1
Hg19::chr1:110546552..110546575,+ p7@AHCYL1
Hg19::chr1:110546650..110546663,+ p12@AHCYL1
Hg19::chr1:110546674..110546695,+ p5@AHCYL1
Hg19::chr1:110546700..110546758,+ p2@AHCYL1
Hg19::chr1:110546760..110546769,+ p21@AHCYL1


Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data


No GOStat results

Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset


uberon_data
disease_data


Uber Anatomy
Ontology termp-valuen
neural tube2.00e-1857
neural rod2.00e-1857
future spinal cord2.00e-1857
neural keel2.00e-1857
tube8.22e-18194
adult organism1.11e-17115
anatomical conduit2.41e-16241
regional part of brain1.59e-1559
brain2.68e-1569
future brain2.68e-1569
anatomical cluster2.87e-15286
regional part of forebrain3.35e-1441
forebrain3.35e-1441
future forebrain3.35e-1441
central nervous system4.25e-1482
anterior neural tube2.28e-1342
neural plate3.41e-1286
presumptive neural plate3.41e-1286
regional part of nervous system2.08e-1194
nervous system2.08e-1194
gray matter5.46e-1134
brain grey matter5.46e-1134
neurectoderm5.78e-1190
multi-tissue structure1.18e-10347
telencephalon1.34e-1034
regional part of telencephalon2.37e-1033
cerebral hemisphere1.85e-0932
organ8.47e-09511
cell layer3.45e-08312
epithelium3.71e-08309
pre-chordal neural plate4.93e-0861
head1.40e-07123
nucleus of brain1.91e-079
neural nucleus1.91e-079
regional part of cerebral cortex2.36e-0722
organism subdivision2.82e-07365
immaterial anatomical entity3.27e-07126
basal ganglion3.36e-079
nuclear complex of neuraxis3.36e-079
aggregate regional part of brain3.36e-079
collection of basal ganglia3.36e-079
cerebral subcortex3.36e-079
subdivision of digestive tract3.61e-07129
endodermal part of digestive tract3.61e-07129
anterior region of body4.43e-07129
craniocervical region4.43e-07129
primordium5.18e-07168
Disease
Ontology termp-valuen
carcinoma9.48e-15106
cell type cancer3.06e-10143
disease of cellular proliferation1.27e-07239
cancer2.85e-07235


Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data


No analysis results for this cluster

Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data


This analysis result is provided for C0 - C305 clusters.