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Difference between revisions of "Coexpression cluster:C4725"

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|ontology_enrichment_disease=DOID:305!8.53e-19!106;DOID:0050687!1.38e-12!143;DOID:162!1.06e-10!235;DOID:14566!5.90e-10!239;DOID:1749!9.47e-09!14
 
|ontology_enrichment_disease=DOID:305!8.53e-19!106;DOID:0050687!1.38e-12!143;DOID:162!1.06e-10!235;DOID:14566!5.90e-10!239;DOID:1749!9.47e-09!14
 
|ontology_enrichment_uberon=UBERON:0004119!2.30e-22!169;UBERON:0000925!2.30e-22!169;UBERON:0006595!2.30e-22!169;UBERON:0001004!7.36e-20!72;UBERON:0000065!1.66e-19!53;UBERON:0001007!3.18e-16!155;UBERON:0001555!3.18e-16!155;UBERON:0007026!3.18e-16!155;UBERON:0008947!6.23e-16!38;UBERON:0003258!6.23e-16!38;UBERON:0000077!1.50e-15!130;UBERON:0000072!3.97e-15!46;UBERON:0004921!2.05e-13!129;UBERON:0004185!2.05e-13!129;UBERON:0005153!6.77e-12!37;UBERON:0001041!1.06e-11!98;UBERON:0005157!2.42e-10!51;UBERON:0005911!2.63e-10!82;UBERON:0005178!4.79e-10!34;UBERON:0002224!4.79e-10!34;UBERON:0000464!6.05e-10!104;UBERON:0005181!1.53e-09!35;UBERON:0005156!2.71e-09!59;UBERON:0000990!2.71e-09!59;UBERON:0000161!5.23e-09!35;UBERON:0001048!2.15e-08!168;UBERON:0005631!2.77e-08!14;UBERON:0000158!2.77e-08!14;UBERON:0001557!6.84e-08!19;UBERON:0001737!1.04e-07!9;UBERON:0002048!1.19e-07!22;UBERON:0000117!1.19e-07!22;UBERON:0000171!1.19e-07!22;UBERON:0000170!1.19e-07!22;UBERON:0005597!1.19e-07!22;UBERON:0000118!1.19e-07!22;UBERON:0004807!1.57e-07!28;UBERON:0000466!1.87e-07!126;UBERON:0003133!2.15e-07!48;UBERON:0004175!2.36e-07!25;UBERON:0003100!3.26e-07!41;UBERON:0000064!5.32e-07!219;UBERON:0007196!8.05e-07!14;UBERON:0001558!8.05e-07!14
 
|ontology_enrichment_uberon=UBERON:0004119!2.30e-22!169;UBERON:0000925!2.30e-22!169;UBERON:0006595!2.30e-22!169;UBERON:0001004!7.36e-20!72;UBERON:0000065!1.66e-19!53;UBERON:0001007!3.18e-16!155;UBERON:0001555!3.18e-16!155;UBERON:0007026!3.18e-16!155;UBERON:0008947!6.23e-16!38;UBERON:0003258!6.23e-16!38;UBERON:0000077!1.50e-15!130;UBERON:0000072!3.97e-15!46;UBERON:0004921!2.05e-13!129;UBERON:0004185!2.05e-13!129;UBERON:0005153!6.77e-12!37;UBERON:0001041!1.06e-11!98;UBERON:0005157!2.42e-10!51;UBERON:0005911!2.63e-10!82;UBERON:0005178!4.79e-10!34;UBERON:0002224!4.79e-10!34;UBERON:0000464!6.05e-10!104;UBERON:0005181!1.53e-09!35;UBERON:0005156!2.71e-09!59;UBERON:0000990!2.71e-09!59;UBERON:0000161!5.23e-09!35;UBERON:0001048!2.15e-08!168;UBERON:0005631!2.77e-08!14;UBERON:0000158!2.77e-08!14;UBERON:0001557!6.84e-08!19;UBERON:0001737!1.04e-07!9;UBERON:0002048!1.19e-07!22;UBERON:0000117!1.19e-07!22;UBERON:0000171!1.19e-07!22;UBERON:0000170!1.19e-07!22;UBERON:0005597!1.19e-07!22;UBERON:0000118!1.19e-07!22;UBERON:0004807!1.57e-07!28;UBERON:0000466!1.87e-07!126;UBERON:0003133!2.15e-07!48;UBERON:0004175!2.36e-07!25;UBERON:0003100!3.26e-07!41;UBERON:0000064!5.32e-07!219;UBERON:0007196!8.05e-07!14;UBERON:0001558!8.05e-07!14
 +
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}}
 
}}

Revision as of 11:16, 8 August 2012


Full id: C4725_Corneal_Keratinocyte_mesothelioma_Bronchial_Urothelial_papillotubular_Gingival



Phase1 CAGE Peaks

  Short description
Hg19::chr8:124194824..124194835,+ p5@FAM83A
Hg19::chr8:124194875..124194920,+ p2@FAM83A
Hg19::chr8:124194922..124194957,+ p1@FAM83A


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

cell_data
uberon_data
disease_data


Uber Anatomy
Ontology termp-valuen
endoderm-derived structure2.30e-22169
endoderm2.30e-22169
presumptive endoderm2.30e-22169
respiratory system7.36e-2072
respiratory tract1.66e-1953
digestive system3.18e-16155
digestive tract3.18e-16155
primitive gut3.18e-16155
respiratory primordium6.23e-1638
endoderm of foregut6.23e-1638
mixed endoderm/mesoderm-derived structure1.50e-15130
segment of respiratory tract3.97e-1546
subdivision of digestive tract2.05e-13129
endodermal part of digestive tract2.05e-13129
epithelial bud6.77e-1237
foregut1.06e-1198
epithelial fold2.42e-1051
endo-epithelium2.63e-1082
thoracic cavity element4.79e-1034
thoracic cavity4.79e-1034
anatomical space6.05e-10104
thoracic segment organ1.53e-0935
reproductive structure2.71e-0959
reproductive system2.71e-0959
orifice5.23e-0935
primordium2.15e-08168
extraembryonic membrane2.77e-0814
membranous layer2.77e-0814
upper respiratory tract6.84e-0819
larynx1.04e-079
lung1.19e-0722
respiratory tube1.19e-0722
respiration organ1.19e-0722
pair of lungs1.19e-0722
lung primordium1.19e-0722
lung bud1.19e-0722
respiratory system epithelium1.57e-0728
immaterial anatomical entity1.87e-07126
reproductive organ2.15e-0748
internal genitalia2.36e-0725
female organism3.26e-0741
organ part5.32e-07219
tracheobronchial tree8.05e-0714
lower respiratory tract8.05e-0714
Disease
Ontology termp-valuen
carcinoma8.53e-19106
cell type cancer1.38e-12143
cancer1.06e-10235
disease of cellular proliferation5.90e-10239
squamous cell carcinoma9.47e-0914


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)

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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.