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Coexpression cluster:C3316

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Full id: C3316_Amniotic_seminal_ductal_ductus_lung_tubular_Placental



Phase1 CAGE Peaks

  Short description
Hg19::chr12:6484190..6484221,- p7@SCNN1A
Hg19::chr12:6484243..6484261,- p10@SCNN1A
Hg19::chr12:6484306..6484392,+ p4@LTBR


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 structure1.88e-20160
endoderm1.88e-20160
presumptive endoderm1.88e-20160
urinary system structure2.54e-1847
trunk region element8.58e-18101
renal system1.06e-1748
subdivision of digestive tract6.48e-17118
digestive system2.50e-14145
digestive tract2.50e-14145
primitive gut2.50e-14145
immaterial anatomical entity3.57e-14117
anatomical space1.32e-1395
endo-epithelium4.44e-1282
foregut1.85e-1187
epithelial bud7.26e-1137
kidney2.20e-1026
kidney mesenchyme2.20e-1026
upper urinary tract2.20e-1026
kidney rudiment2.20e-1026
kidney field2.20e-1026
subdivision of trunk2.92e-10112
thoracic cavity element3.57e-1034
thoracic cavity3.57e-1034
organ3.71e-10503
nephron tubule epithelium4.22e-1010
cavitated compound organ4.90e-1031
thoracic segment organ1.07e-0935
respiratory tract7.11e-0954
lung8.44e-0922
respiratory tube8.44e-0922
respiration organ8.44e-0922
pair of lungs8.44e-0922
lung primordium8.44e-0922
lung bud8.44e-0922
multi-cellular organism1.53e-08656
organ system subdivision1.69e-08223
embryo2.44e-08592
excretory tube3.37e-0816
kidney epithelium3.37e-0816
respiratory system3.92e-0874
multi-tissue structure4.41e-08342
organ segment5.82e-0898
epithelial fold7.22e-0847
organism subdivision1.28e-07264
abdomen element1.64e-0754
abdominal segment element1.64e-0754
nephron epithelium2.15e-0715
renal tubule2.15e-0715
nephron tubule2.15e-0715
nephron2.15e-0715
uriniferous tubule2.15e-0715
nephrogenic mesenchyme2.15e-0715
primordium2.59e-07160
reproductive structure2.76e-0759
reproductive system2.76e-0759
extraembryonic membrane2.83e-0714
membranous layer2.83e-0714
respiratory primordium3.27e-0738
endoderm of foregut3.27e-0738
anatomical cluster5.13e-07373
male reproductive organ5.19e-0711
organ part8.67e-07218
transitional epithelium9.53e-076
male organism9.77e-0722
male reproductive system9.77e-0722
Disease
Ontology termp-valuen
carcinoma1.66e-11106
cell type cancer3.59e-08143


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


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
ESR1#2099220.51240219743630.003099741577095180.0163040849400807



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.