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Coexpression cluster:C1825


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Full id: C1825_pancreas_Hepatocyte_liver_colon_gastric_hepatoma_hepatoblastoma

Phase1 CAGE Peaks


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

2.20782089021958e-060.00139755062350899225Maturity onset diabetes of the young (KEGG):04950
4.73033289875392e-050.01497150362455622114Regulation of beta-cell development (Reactome):REACT_13698

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:0003702RNA polymerase II transcription factor activity0.0105280880666253
GO:0001678cell glucose homeostasis0.0105280880666253
GO:0042592homeostatic process0.0105280880666253
GO:0009267cellular response to starvation0.0105280880666253
GO:0031669cellular response to nutrient levels0.0105280880666253
GO:0004065arylsulfatase activity0.0105280880666253
GO:0042594response to starvation0.0105280880666253
GO:0031668cellular response to extracellular stimulus0.0105280880666253
GO:0042593glucose homeostasis0.0105280880666253
GO:0033554cellular response to stress0.0105280880666253
GO:0033500carbohydrate homeostasis0.0105280880666253
GO:0043565sequence-specific DNA binding0.0130242900715327
GO:0051716cellular response to stimulus0.0130242900715327
GO:0065008regulation of biological quality0.0130242900715327
GO:0003705RNA polymerase II transcription factor activity, enhancer binding0.0130242900715327
GO:0008484sulfuric ester hydrolase activity0.0144693029843891
GO:0003704specific RNA polymerase II transcription factor activity0.016593720844225
GO:0031667response to nutrient levels0.0238504556699512
GO:0003700transcription factor activity0.0238504556699512
GO:0009991response to extracellular stimulus0.0238504556699512
GO:0048856anatomical structure development0.0383789720749396
GO:0003707steroid hormone receptor activity0.0383789720749396
GO:0007275multicellular organismal development0.0459567706342884
GO:0004879ligand-dependent nuclear receptor activity0.0459567706342884

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>disease_data<br>

Cell Type
Ontology termp-valuen
kidney cell2.69e-0718
kidney epithelial cell2.69e-0718
Uber Anatomy
Ontology termp-valuen
abdomen element4.27e-1355
abdominal segment element4.27e-1355
abdominal segment of trunk7.80e-1161
trunk region element7.35e-10107
immaterial anatomical entity8.50e-10126
kidney mesenchyme2.32e-0927
kidney rudiment2.32e-0927
kidney field2.32e-0927
epithelium of foregut-midgut junction9.61e-0825
anatomical boundary9.61e-0825
hepatobiliary system9.61e-0825
foregut-midgut junction9.61e-0825
septum transversum9.61e-0825
digestive system1.46e-07155
digestive tract1.46e-07155
primitive gut1.46e-07155
digestive tract diverticulum2.19e-0723
gastrointestinal system2.90e-0735
cavitated compound organ3.75e-0732
nephrogenic cord5.62e-0718
pronephric mesoderm5.62e-0718
rostral part of nephrogenic cord5.62e-0718
presumptive pronephric mesoderm5.62e-0718
epithelial sac7.41e-0725
hepatic diverticulum9.02e-0722
liver primordium9.02e-0722
Ontology termp-valuen

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



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.