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Coexpression cluster:C2910: Difference between revisions

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|full_id=C2910_smallcell_parotid_submaxillary_Hepatocyte_pancreas_liver_salivary
|full_id=C2910_smallcell_parotid_submaxillary_Hepatocyte_pancreas_liver_salivary
|id=C2910
|id=C2910
|ontology_enrichment_celltype=
|ontology_enrichment_celltype=CL:0000181!1.94e-11!12;CL:0000417!1.94e-11!12;CL:0000668!1.94e-11!12;CL:0000412!1.94e-11!12;CL:0000182!1.94e-11!12
|ontology_enrichment_disease=
|ontology_enrichment_disease=DOID:114!5.19e-09!2
|ontology_enrichment_uberon=UBERON:0007023!3.24e-33!115;UBERON:0002365!3.22e-13!31;UBERON:0002330!3.22e-13!31;UBERON:0001044!6.08e-12!6;UBERON:0003293!6.08e-12!6;UBERON:0003294!6.08e-12!6;UBERON:0010047!6.08e-12!6;UBERON:0000167!6.08e-12!6;UBERON:0001049!3.91e-09!57;UBERON:0005068!3.91e-09!57;UBERON:0006241!3.91e-09!57;UBERON:0007135!3.91e-09!57;UBERON:0004111!6.75e-09!241;UBERON:0002020!6.87e-09!34;UBERON:0003528!6.87e-09!34;UBERON:0004921!1.46e-08!129;UBERON:0004185!1.46e-08!129;UBERON:0002530!1.79e-08!59;UBERON:0002616!1.13e-07!59;UBERON:0000078!1.74e-07!18;UBERON:0001041!2.71e-07!98;UBERON:0000153!4.24e-07!129;UBERON:0007811!4.24e-07!129;UBERON:0009854!4.68e-07!23;UBERON:0000956!6.67e-07!25;UBERON:0000203!6.67e-07!25;UBERON:0002791!6.95e-07!33;UBERON:0003978!7.07e-07!3;UBERON:0009751!7.07e-07!3;UBERON:0000946!7.07e-07!3;UBERON:0002523!7.07e-07!3;UBERON:0005983!7.07e-07!3;UBERON:0002165!7.07e-07!3;UBERON:0002062!7.07e-07!3;UBERON:0007280!7.07e-07!3;UBERON:0002619!8.21e-07!22;UBERON:0000477!8.67e-07!286;UBERON:0003408!8.71e-07!10;UBERON:0003080!8.75e-07!42
|ontology_enrichment_uberon=UBERON:0007023!2.03e-25!114;UBERON:0002365!2.50e-16!31;UBERON:0002330!2.50e-16!31;UBERON:0009854!1.54e-12!23;UBERON:0002107!2.21e-12!19;UBERON:0006925!2.21e-12!19;UBERON:0008836!2.21e-12!19;UBERON:0002530!6.97e-12!59;UBERON:0009856!6.72e-11!26;UBERON:0008835!1.66e-10!22;UBERON:0003894!1.66e-10!22;UBERON:0001829!1.01e-09!2;UBERON:0004921!1.73e-09!118;UBERON:0001041!3.27e-09!87;UBERON:0003127!3.62e-09!2;UBERON:0007499!4.38e-09!25;UBERON:0009497!4.38e-09!25;UBERON:0000015!4.38e-09!25;UBERON:0002423!4.38e-09!25;UBERON:0006235!4.38e-09!25;UBERON:0004161!4.38e-09!25;UBERON:0000341!4.60e-09!2;UBERON:0011216!1.71e-07!223;UBERON:0001044!5.48e-07!6;UBERON:0003293!5.48e-07!6;UBERON:0003294!5.48e-07!6;UBERON:0010047!5.48e-07!6;UBERON:0000167!5.48e-07!6;UBERON:0000466!6.23e-07!117;UBERON:0001007!7.11e-07!145;UBERON:0001555!7.11e-07!145;UBERON:0007026!7.11e-07!145;UBERON:0004111!9.24e-07!240
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}}
}}

Revision as of 14:34, 19 October 2012


Full id: C2910_smallcell_parotid_submaxillary_Hepatocyte_pancreas_liver_salivary



Phase1 CAGE Peaks

Hg19::chr7:99567028..99567032,-p@chr7:99567028..99567032
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Hg19::chr7:99569415..99569428,-p@chr7:99569415..99569428
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Hg19::chr7:99569457..99569465,-p@chr7:99569457..99569465
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Hg19::chr7:99569468..99569478,-p@chr7:99569468..99569478
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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
metabolising cell1.94e-1112
endopolyploid cell1.94e-1112
parenchymal cell1.94e-1112
polyploid cell1.94e-1112
hepatocyte1.94e-1112
Uber Anatomy
Ontology termp-valuen
adult organism2.03e-25114
exocrine gland2.50e-1631
exocrine system2.50e-1631
digestive tract diverticulum1.54e-1223
liver2.21e-1219
digestive gland2.21e-1219
liver bud2.21e-1219
gland6.97e-1259
sac6.72e-1126
hepatic diverticulum1.66e-1022
liver primordium1.66e-1022
major salivary gland1.01e-092
subdivision of digestive tract1.73e-09118
foregut3.27e-0987
open tracheal system trachea3.62e-092
epithelial sac4.38e-0925
epithelium of foregut-midgut junction4.38e-0925
anatomical boundary4.38e-0925
hepatobiliary system4.38e-0925
foregut-midgut junction4.38e-0925
septum transversum4.38e-0925
throat4.60e-092
organ system subdivision1.71e-07223
saliva-secreting gland5.48e-076
gland of oral region5.48e-076
gland of foregut5.48e-076
oral gland5.48e-076
oral cavity5.48e-076
immaterial anatomical entity6.23e-07117
digestive system7.11e-07145
digestive tract7.11e-07145
primitive gut7.11e-07145
anatomical conduit9.24e-07240
Disease
Ontology termp-valuen
heart disease5.19e-092


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.