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|full_id=C3909_Hepatocyte_gastrointestinal_signet_liver_argyrophil_pancreas_gastric
|full_id=C3909_Hepatocyte_gastrointestinal_signet_liver_argyrophil_pancreas_gastric
|id=C3909
|id=C3909
|ontology_enrichment_celltype=CL:1000507!4.23e-11!12;CL:1000494!4.23e-11!12;CL:0000181!6.05e-11!12;CL:0000417!6.05e-11!12;CL:0000668!6.05e-11!12;CL:0000414!6.05e-11!12;CL:0000412!6.05e-11!12;CL:0000182!6.05e-11!12;CL:1000497!2.27e-10!18;CL:0002518!2.27e-10!18;CL:1000449!7.16e-08!16;CL:0000223!6.44e-07!59
|ontology_enrichment_disease=DOID:299!1.85e-10!25;DOID:305!1.52e-08!106
|ontology_enrichment_uberon=UBERON:0005172!3.87e-21!55;UBERON:0005173!3.87e-21!55;UBERON:0002417!1.04e-19!61;UBERON:0000916!1.04e-19!61;UBERON:0004921!2.41e-18!129;UBERON:0004185!2.41e-18!129;UBERON:0005409!4.63e-17!35;UBERON:0005177!9.14e-17!107;UBERON:0000466!3.69e-16!126;UBERON:0009854!4.56e-15!23;UBERON:0001007!4.11e-14!155;UBERON:0001555!4.11e-14!155;UBERON:0007026!4.11e-14!155;UBERON:0008835!1.21e-13!22;UBERON:0003894!1.21e-13!22;UBERON:0009497!1.58e-13!25;UBERON:0000015!1.58e-13!25;UBERON:0002423!1.58e-13!25;UBERON:0006235!1.58e-13!25;UBERON:0004161!1.58e-13!25;UBERON:0009569!3.01e-13!113;UBERON:0009856!7.14e-13!26;UBERON:0000160!9.26e-13!27;UBERON:0004119!1.19e-12!169;UBERON:0000925!1.19e-12!169;UBERON:0006595!1.19e-12!169;UBERON:0005057!2.03e-12!26;UBERON:0000077!6.81e-12!130;UBERON:0002107!7.42e-12!19;UBERON:0006925!7.42e-12!19;UBERON:0008836!7.42e-12!19;UBERON:0007499!1.40e-11!25;UBERON:0009773!4.23e-11!12;UBERON:0001231!4.23e-11!12;UBERON:0004810!4.23e-11!12;UBERON:0002113!7.42e-11!27;UBERON:0003918!7.42e-11!27;UBERON:0005095!7.42e-11!27;UBERON:0007687!7.42e-11!27;UBERON:0003887!3.91e-10!21;UBERON:0000489!6.28e-10!32;UBERON:0000058!2.51e-09!26;UBERON:0001008!2.56e-09!45;UBERON:0003104!2.94e-09!238;UBERON:0009142!2.94e-09!238;UBERON:0006555!3.10e-09!17;UBERON:0005103!3.10e-09!17;UBERON:0000083!3.10e-09!17;UBERON:0009201!3.10e-09!17;UBERON:0004819!3.10e-09!17;UBERON:0006553!3.10e-09!17;UBERON:0003074!3.10e-09!17;UBERON:0003060!3.10e-09!17;UBERON:0003929!5.38e-09!54;UBERON:0000949!8.13e-09!45;UBERON:0001041!8.22e-09!98;UBERON:0000080!1.33e-08!18;UBERON:0002120!1.33e-08!18;UBERON:0004875!1.33e-08!18;UBERON:0005721!1.33e-08!18;UBERON:0005754!1.33e-08!18;UBERON:0007297!1.33e-08!18;UBERON:0000059!1.76e-08!11;UBERON:0006554!1.92e-08!44;UBERON:0002368!2.28e-08!35;UBERON:0003886!2.38e-08!63;UBERON:0000481!2.98e-08!347;UBERON:0002553!6.62e-08!70;UBERON:0004211!7.16e-08!16;UBERON:0001285!7.16e-08!16;UBERON:0007684!7.16e-08!16;UBERON:0003220!7.16e-08!16;UBERON:0004208!7.16e-08!16;UBERON:0000464!9.41e-08!104;UBERON:0005911!9.56e-08!82;UBERON:0002100!1.34e-07!216;UBERON:0004876!1.57e-07!20;UBERON:0002365!2.85e-07!31;UBERON:0002330!2.85e-07!31;UBERON:0004175!3.07e-07!25;UBERON:0003064!9.27e-07!37;UBERON:0004907!9.38e-07!5
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Revision as of 14:42, 21 May 2012


Full id: C3909_Hepatocyte_gastrointestinal_signet_liver_argyrophil_pancreas_gastric



Phase1 CAGE Peaks

Hg19::chr1:17906970..17906994,+p5@ARHGEF10L
Hg19::chr7:47510248..47510266,-p@chr7:47510248..47510266
-
Hg19::chr7:47510275..47510293,-p@chr7:47510275..47510293
-


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

No GOStat results

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 tubule cell4.23e-1112
nephron tubule epithelial cell4.23e-1112
metabolising cell6.05e-1112
endopolyploid cell6.05e-1112
parenchymal cell6.05e-1112
polyploid cell6.05e-1112
hepatocyte6.05e-1112
kidney cell2.27e-1018
kidney epithelial cell2.27e-1018
epithelial cell of nephron7.16e-0816
endodermal cell6.44e-0759
Uber Anatomy
Ontology termp-valuen
abdomen element3.87e-2155
abdominal segment element3.87e-2155
abdominal segment of trunk1.04e-1961
abdomen1.04e-1961
subdivision of digestive tract2.41e-18129
endodermal part of digestive tract2.41e-18129
gastrointestinal system4.63e-1735
trunk region element9.14e-17107
immaterial anatomical entity3.69e-16126
digestive tract diverticulum4.56e-1523
digestive system4.11e-14155
digestive tract4.11e-14155
primitive gut4.11e-14155
hepatic diverticulum1.21e-1322
liver primordium1.21e-1322
epithelium of foregut-midgut junction1.58e-1325
anatomical boundary1.58e-1325
hepatobiliary system1.58e-1325
foregut-midgut junction1.58e-1325
septum transversum1.58e-1325
subdivision of trunk3.01e-13113
sac7.14e-1326
intestine9.26e-1327
endoderm-derived structure1.19e-12169
endoderm1.19e-12169
presumptive endoderm1.19e-12169
immune organ2.03e-1226
mixed endoderm/mesoderm-derived structure6.81e-12130
liver7.42e-1219
digestive gland7.42e-1219
liver bud7.42e-1219
epithelial sac1.40e-1125
renal tubule4.23e-1112
nephron tubule4.23e-1112
nephron tubule epithelium4.23e-1112
kidney7.42e-1127
kidney mesenchyme7.42e-1127
kidney rudiment7.42e-1127
kidney field7.42e-1127
intraembryonic coelom3.91e-1021
cavitated compound organ6.28e-1032
duct2.51e-0926
renal system2.56e-0945
mesenchyme2.94e-09238
entire embryonic mesenchyme2.94e-09238
excretory tube3.10e-0917
mesonephric epithelium3.10e-0917
mesonephric tubule3.10e-0917
nephric duct3.10e-0917
kidney epithelium3.10e-0917
renal duct3.10e-0917
mesonephric duct3.10e-0917
pronephric duct3.10e-0917
gut epithelium5.38e-0954
endocrine system8.13e-0945
foregut8.22e-0998
mesonephros1.33e-0818
pronephros1.33e-0818
nephrogenic cord1.33e-0818
pronephric mesoderm1.33e-0818
rostral part of nephrogenic cord1.33e-0818
presumptive pronephric mesoderm1.33e-0818
large intestine1.76e-0811
urinary system structure1.92e-0844
endocrine gland2.28e-0835
body cavity precursor2.38e-0863
multi-tissue structure2.98e-08347
anatomical cavity6.62e-0870
nephron epithelium7.16e-0816
nephron7.16e-0816
uriniferous tubule7.16e-0816
metanephric mesenchyme7.16e-0816
nephrogenic mesenchyme7.16e-0816
anatomical space9.41e-08104
endo-epithelium9.56e-0882
trunk1.34e-07216
urogenital ridge1.57e-0720
exocrine gland2.85e-0731
exocrine system2.85e-0731
internal genitalia3.07e-0725
intermediate mesoderm9.27e-0737
lower digestive tract9.38e-075
Disease
Ontology termp-valuen
adenocarcinoma1.85e-1025
carcinoma1.52e-08106


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.

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