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Coexpression cluster:C2736: Difference between revisions

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|full_id=C2736_oral_immature_endometrial_serous_Keratinocyte_Mallassezderived_Gingival
|full_id=C2736_oral_immature_endometrial_serous_Keratinocyte_Mallassezderived_Gingival
|id=C2736
|id=C2736
|ontology_enrichment_celltype=CL:0000066!5.23e-39!254;CL:0000223!5.64e-19!59;CL:0002076!3.17e-16!43;CL:0000220!1.84e-13!246;CL:0002321!1.90e-13!248;CL:1000497!1.85e-07!18;CL:0002518!1.85e-07!18;CL:0002251!3.18e-07!21
|ontology_enrichment_celltype=CL:0000066!1.54e-40!253;CL:0000223!9.79e-23!58;CL:0002076!3.04e-19!42;CL:0002321!3.68e-10!250;CL:0002251!3.77e-10!20;CL:1000507!1.42e-07!10;CL:1000494!1.42e-07!10;CL:0000076!5.99e-07!63
|ontology_enrichment_disease=DOID:305!1.15e-15!106;DOID:0050687!8.08e-14!143;DOID:120!1.34e-08!27;DOID:193!2.53e-08!29;DOID:1749!1.35e-07!14
|ontology_enrichment_disease=DOID:305!2.62e-18!106;DOID:0050687!1.21e-16!143;DOID:14566!1.87e-10!239;DOID:162!3.75e-10!235;DOID:120!1.07e-09!27;DOID:1749!2.16e-09!14;DOID:193!2.81e-09!29
|ontology_enrichment_uberon=UBERON:0004119!6.55e-24!169;UBERON:0000925!6.55e-24!169;UBERON:0006595!6.55e-24!169;UBERON:0000481!3.34e-23!347;UBERON:0001007!2.43e-20!155;UBERON:0001555!2.43e-20!155;UBERON:0007026!2.43e-20!155;UBERON:0000466!2.43e-19!126;UBERON:0003104!1.87e-18!238;UBERON:0009142!1.87e-18!238;UBERON:0004921!5.00e-17!129;UBERON:0004185!5.00e-17!129;UBERON:0005177!4.93e-16!107;UBERON:0000077!5.06e-16!130;UBERON:0000922!1.70e-15!612;UBERON:0001048!3.11e-15!168;UBERON:0000464!5.54e-15!104;UBERON:0005911!1.61e-14!82;UBERON:0002050!2.27e-14!605;UBERON:0005423!2.27e-14!605;UBERON:0001041!2.94e-14!98;UBERON:0000923!4.18e-14!604;UBERON:0005291!4.18e-14!604;UBERON:0006598!4.18e-14!604;UBERON:0002532!4.18e-14!604;UBERON:0000468!6.71e-14!659;UBERON:0000062!6.77e-13!511;UBERON:0000477!3.85e-12!286;UBERON:0000475!3.90e-12!365;UBERON:0000467!6.63e-12!625;UBERON:0001004!9.14e-12!72;UBERON:0000480!1.21e-11!626;UBERON:0002553!3.77e-11!70;UBERON:0001008!5.16e-11!45;UBERON:0006554!8.88e-11!44;UBERON:0000483!2.40e-10!309;UBERON:0000119!4.57e-10!312;UBERON:0004111!7.11e-10!241;UBERON:0000064!7.88e-10!219;UBERON:0003064!1.04e-09!37;UBERON:0005172!1.07e-09!55;UBERON:0005173!1.07e-09!55;UBERON:0003886!1.23e-09!63;UBERON:0002100!2.10e-09!216;UBERON:0003929!4.28e-09!54;UBERON:0005156!4.52e-09!59;UBERON:0000990!4.52e-09!59;UBERON:0000058!6.61e-09!26;UBERON:0000161!1.75e-08!35;UBERON:0002530!2.81e-08!59;UBERON:0000065!3.19e-08!53;UBERON:0009569!4.77e-08!113;UBERON:0004876!1.49e-07!20;UBERON:0002417!2.02e-07!61;UBERON:0000916!2.02e-07!61;UBERON:0005256!2.58e-07!143;UBERON:0000080!2.67e-07!18;UBERON:0002120!2.67e-07!18;UBERON:0004875!2.67e-07!18;UBERON:0005721!2.67e-07!18;UBERON:0005754!2.67e-07!18;UBERON:0007297!2.67e-07!18;UBERON:0003133!2.90e-07!48;UBERON:0001444!3.48e-07!48;UBERON:0006555!4.84e-07!17;UBERON:0005103!4.84e-07!17;UBERON:0000083!4.84e-07!17;UBERON:0009201!4.84e-07!17;UBERON:0004819!4.84e-07!17;UBERON:0006553!4.84e-07!17;UBERON:0003074!4.84e-07!17;UBERON:0003060!4.84e-07!17;UBERON:0008947!9.63e-07!38;UBERON:0003258!9.63e-07!38;UBERON:0000489!9.89e-07!32
|ontology_enrichment_uberon=UBERON:0004119!1.05e-18!160;UBERON:0000925!1.05e-18!160;UBERON:0006595!1.05e-18!160;UBERON:0001007!4.52e-15!145;UBERON:0001555!4.52e-15!145;UBERON:0007026!4.52e-15!145;UBERON:0005911!3.78e-13!82;UBERON:0005177!8.95e-12!101;UBERON:0004921!4.22e-11!118;UBERON:0000475!2.53e-10!264;UBERON:0001004!6.07e-10!74;UBERON:0003929!8.37e-10!54;UBERON:0001041!1.10e-09!87;UBERON:0000466!1.74e-09!117;UBERON:0000481!2.81e-08!342;UBERON:0000922!3.00e-08!592;UBERON:0001048!3.50e-08!160;UBERON:0005172!5.86e-08!54;UBERON:0005173!5.86e-08!54;UBERON:0000153!9.91e-08!62;UBERON:0007811!9.91e-08!62;UBERON:0004810!1.42e-07!10;UBERON:0000161!1.71e-07!36;UBERON:0000033!1.73e-07!56;UBERON:0006554!2.11e-07!47;UBERON:0001008!4.77e-07!48;UBERON:0002530!4.82e-07!59;UBERON:0000477!5.42e-07!373;UBERON:0005156!5.96e-07!59;UBERON:0000990!5.96e-07!59;UBERON:0005423!6.37e-07!581;UBERON:0000468!8.80e-07!656;UBERON:0001444!8.88e-07!49;UBERON:0009497!9.14e-07!25;UBERON:0000015!9.14e-07!25;UBERON:0002423!9.14e-07!25;UBERON:0006235!9.14e-07!25;UBERON:0004161!9.14e-07!25
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}}
}}

Revision as of 14:22, 19 October 2012


Full id: C2736_oral_immature_endometrial_serous_Keratinocyte_Mallassezderived_Gingival



Phase1 CAGE Peaks

Hg19::chr3:190025518..190025532,-p@chr3:190025518..190025532
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Hg19::chr3:190025549..190025573,-p@chr3:190025549..190025573
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Hg19::chr3:190025784..190025804,-p@chr3:190025784..190025804
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Hg19::chr3:190040223..190040243,-p1@CLDN1


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
epithelial cell1.54e-40253
endodermal cell9.79e-2358
endo-epithelial cell3.04e-1942
embryonic cell3.68e-10250
epithelial cell of alimentary canal3.77e-1020
kidney tubule cell1.42e-0710
nephron tubule epithelial cell1.42e-0710
squamous epithelial cell5.99e-0763
Uber Anatomy
Ontology termp-valuen
endoderm-derived structure1.05e-18160
endoderm1.05e-18160
presumptive endoderm1.05e-18160
digestive system4.52e-15145
digestive tract4.52e-15145
primitive gut4.52e-15145
endo-epithelium3.78e-1382
trunk region element8.95e-12101
subdivision of digestive tract4.22e-11118
organism subdivision2.53e-10264
respiratory system6.07e-1074
gut epithelium8.37e-1054
foregut1.10e-0987
immaterial anatomical entity1.74e-09117
multi-tissue structure2.81e-08342
embryo3.00e-08592
primordium3.50e-08160
abdomen element5.86e-0854
abdominal segment element5.86e-0854
anterior region of body9.91e-0862
craniocervical region9.91e-0862
nephron tubule epithelium1.42e-0710
orifice1.71e-0736
head1.73e-0756
urinary system structure2.11e-0747
renal system4.77e-0748
gland4.82e-0759
anatomical cluster5.42e-07373
reproductive structure5.96e-0759
reproductive system5.96e-0759
developing anatomical structure6.37e-07581
multi-cellular organism8.80e-07656
subdivision of head8.88e-0749
epithelium of foregut-midgut junction9.14e-0725
anatomical boundary9.14e-0725
hepatobiliary system9.14e-0725
foregut-midgut junction9.14e-0725
septum transversum9.14e-0725
Disease
Ontology termp-valuen
carcinoma2.62e-18106
cell type cancer1.21e-16143
disease of cellular proliferation1.87e-10239
cancer3.75e-10235
female reproductive organ cancer1.07e-0927
squamous cell carcinoma2.16e-0914
reproductive organ cancer2.81e-0929


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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