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|full_id=C2436_serous_gastric_argyrophil_gall_smallcell_gastrointestinal_acantholytic
|full_id=C2436_serous_gastric_argyrophil_gall_smallcell_gastrointestinal_acantholytic
|id=C2436
|id=C2436
|ontology_enrichment_celltype=CL:0002322!2.71e-07!5;CL:1000449!3.69e-07!16;CL:1000507!6.76e-07!12;CL:1000494!6.76e-07!12
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!2.41e-17!115;UBERON:0003135!1.23e-10!11;UBERON:0000058!3.43e-10!26;UBERON:0000080!3.89e-09!18;UBERON:0002120!3.89e-09!18;UBERON:0004875!3.89e-09!18;UBERON:0005721!3.89e-09!18;UBERON:0005754!3.89e-09!18;UBERON:0007297!3.89e-09!18;UBERON:0004876!4.24e-09!20;UBERON:0001049!1.44e-08!57;UBERON:0005068!1.44e-08!57;UBERON:0006241!1.44e-08!57;UBERON:0007135!1.44e-08!57;UBERON:0003887!1.96e-08!21;UBERON:0006555!3.99e-08!17;UBERON:0005103!3.99e-08!17;UBERON:0000083!3.99e-08!17;UBERON:0009201!3.99e-08!17;UBERON:0004819!3.99e-08!17;UBERON:0006553!3.99e-08!17;UBERON:0003074!3.99e-08!17;UBERON:0003060!3.99e-08!17;UBERON:0000464!4.50e-08!104;UBERON:0000489!5.26e-08!32;UBERON:0000473!1.35e-07!8;UBERON:0004732!3.19e-07!13;UBERON:0003886!3.65e-07!63;UBERON:0004211!3.69e-07!16;UBERON:0001285!3.69e-07!16;UBERON:0007684!3.69e-07!16;UBERON:0003220!3.69e-07!16;UBERON:0004208!3.69e-07!16;UBERON:0003076!4.53e-07!15;UBERON:0003057!4.53e-07!15;UBERON:0002113!5.05e-07!27;UBERON:0003918!5.05e-07!27;UBERON:0005095!5.05e-07!27;UBERON:0007687!5.05e-07!27;UBERON:0009773!6.76e-07!12;UBERON:0001231!6.76e-07!12;UBERON:0004810!6.76e-07!12;UBERON:0000466!9.09e-07!126;UBERON:0001017!9.69e-07!82
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Revision as of 14:24, 21 May 2012


Full id: C2436_serous_gastric_argyrophil_gall_smallcell_gastrointestinal_acantholytic



Phase1 CAGE Peaks

Hg19::chr17:74136040..74136061,-p2@AB463648
p2@AB464532
Hg19::chr17:74136069..74136082,-p3@AB463648
p3@AB464532
Hg19::chr17:74136083..74136116,-p1@AB463648
p1@AB464532
Hg19::chr17:74136122..74136132,-p4@AB463648
p4@AB464532


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><br>

Cell Type
Ontology termp-valuen
embryonic stem cell2.71e-075
epithelial cell of nephron3.69e-0716
kidney tubule cell6.76e-0712
nephron tubule epithelial cell6.76e-0712
Uber Anatomy
Ontology termp-valuen
adult organism2.41e-17115
male reproductive organ1.23e-1011
duct3.43e-1026
mesonephros3.89e-0918
pronephros3.89e-0918
nephrogenic cord3.89e-0918
pronephric mesoderm3.89e-0918
rostral part of nephrogenic cord3.89e-0918
presumptive pronephric mesoderm3.89e-0918
urogenital ridge4.24e-0920
neural tube1.44e-0857
neural rod1.44e-0857
future spinal cord1.44e-0857
neural keel1.44e-0857
intraembryonic coelom1.96e-0821
excretory tube3.99e-0817
mesonephric epithelium3.99e-0817
mesonephric tubule3.99e-0817
nephric duct3.99e-0817
kidney epithelium3.99e-0817
renal duct3.99e-0817
mesonephric duct3.99e-0817
pronephric duct3.99e-0817
anatomical space4.50e-08104
cavitated compound organ5.26e-0832
testis1.35e-078
segmental subdivision of nervous system3.19e-0713
body cavity precursor3.65e-0763
nephron epithelium3.69e-0716
nephron3.69e-0716
uriniferous tubule3.69e-0716
metanephric mesenchyme3.69e-0716
nephrogenic mesenchyme3.69e-0716
posterior neural tube4.53e-0715
chordal neural plate4.53e-0715
kidney5.05e-0727
kidney mesenchyme5.05e-0727
kidney rudiment5.05e-0727
kidney field5.05e-0727
renal tubule6.76e-0712
nephron tubule6.76e-0712
nephron tubule epithelium6.76e-0712
immaterial anatomical entity9.09e-07126
central nervous system9.69e-0782


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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