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|full_id=C4010_ductal_giant_squamous_Tracheal_bronchogenic_Keratinocyte_amniotic
|full_id=C4010_ductal_giant_squamous_Tracheal_bronchogenic_Keratinocyte_amniotic
|id=C4010
|id=C4010
|ontology_enrichment_celltype=CL:0000066!2.54e-44!254;CL:0002076!5.96e-34!43;CL:0000223!3.66e-26!59;CL:0002368!8.62e-16!13;CL:0002251!2.82e-13!21;CL:0002202!9.43e-11!9;CL:0002632!9.43e-11!9;CL:0002159!9.96e-11!13;CL:0000076!5.53e-10!62;CL:0000220!3.04e-09!246;CL:0000063!4.06e-09!578;CL:0002321!4.97e-09!248;CL:0000082!9.46e-09!19;CL:0002077!2.32e-07!33;CL:0000622!3.21e-07!5;CL:0000244!6.77e-07!4;CL:0000731!6.77e-07!4
|ontology_enrichment_disease=DOID:305!9.32e-19!106;DOID:0050687!3.43e-14!143;DOID:1749!4.71e-13!14;DOID:162!4.55e-08!235;DOID:14566!1.41e-07!239
|ontology_enrichment_uberon=UBERON:0004119!7.08e-19!169;UBERON:0000925!7.08e-19!169;UBERON:0006595!7.08e-19!169;UBERON:0001004!2.11e-13!72;UBERON:0005911!1.40e-12!82;UBERON:0001007!1.85e-12!155;UBERON:0001555!1.85e-12!155;UBERON:0007026!1.85e-12!155;UBERON:0005153!3.77e-12!37;UBERON:0000077!1.91e-11!130;UBERON:0004807!1.14e-10!28;UBERON:0005631!3.62e-10!14;UBERON:0000158!3.62e-10!14;UBERON:0000065!3.74e-10!53;UBERON:0005157!5.06e-10!51;UBERON:0004921!2.78e-09!129;UBERON:0004185!2.78e-09!129;UBERON:0000464!5.73e-09!104;UBERON:0004802!9.46e-09!19;UBERON:0000115!9.46e-09!19;UBERON:0001041!9.88e-09!98;UBERON:0005178!1.33e-08!34;UBERON:0002224!1.33e-08!34;UBERON:0000365!2.73e-08!5;UBERON:0005181!3.21e-08!35;UBERON:0000072!4.30e-08!46;UBERON:0008947!7.00e-08!38;UBERON:0003258!7.00e-08!38;UBERON:0003729!9.20e-08!5;UBERON:0000466!9.30e-08!126;UBERON:0007196!9.82e-08!14;UBERON:0001558!9.82e-08!14;UBERON:0000161!1.17e-07!35;UBERON:0000062!1.23e-07!511;UBERON:0002048!4.00e-07!22;UBERON:0000117!4.00e-07!22;UBERON:0000171!4.00e-07!22;UBERON:0000170!4.00e-07!22;UBERON:0005597!4.00e-07!22;UBERON:0000118!4.00e-07!22;UBERON:0001048!6.19e-07!168;UBERON:0000344!7.10e-07!12;UBERON:0003124!8.85e-07!7;UBERON:0005910!8.92e-07!6
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Revision as of 14:43, 21 May 2012


Full id: C4010_ductal_giant_squamous_Tracheal_bronchogenic_Keratinocyte_amniotic



Phase1 CAGE Peaks

Hg19::chr1:94240867..94240875,-p4@uc001dqd.1
Hg19::chr1:94240931..94240955,-p1@uc001dqd.1
Hg19::chr1:94240961..94241024,-p1@ENST00000433544


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>


Uber Anatomy
Ontology termp-valuen
endoderm-derived structure7.08e-19169
endoderm7.08e-19169
presumptive endoderm7.08e-19169
respiratory system2.11e-1372
endo-epithelium1.40e-1282
digestive system1.85e-12155
digestive tract1.85e-12155
primitive gut1.85e-12155
epithelial bud3.77e-1237
mixed endoderm/mesoderm-derived structure1.91e-11130
respiratory system epithelium1.14e-1028
extraembryonic membrane3.62e-1014
membranous layer3.62e-1014
respiratory tract3.74e-1053
epithelial fold5.06e-1051
subdivision of digestive tract2.78e-09129
endodermal part of digestive tract2.78e-09129
anatomical space5.73e-09104
respiratory tract epithelium9.46e-0919
lung epithelium9.46e-0919
foregut9.88e-0998
thoracic cavity element1.33e-0834
thoracic cavity1.33e-0834
urothelium2.73e-085
thoracic segment organ3.21e-0835
segment of respiratory tract4.30e-0846
respiratory primordium7.00e-0838
endoderm of foregut7.00e-0838
mouth mucosa9.20e-085
immaterial anatomical entity9.30e-08126
tracheobronchial tree9.82e-0814
lower respiratory tract9.82e-0814
orifice1.17e-0735
organ1.23e-07511
lung4.00e-0722
respiratory tube4.00e-0722
respiration organ4.00e-0722
pair of lungs4.00e-0722
lung primordium4.00e-0722
lung bud4.00e-0722
primordium6.19e-07168
mucosa7.10e-0712
chorion8.85e-077
transitional epithelium8.92e-076
Disease
Ontology termp-valuen
carcinoma9.32e-19106
cell type cancer3.43e-14143
squamous cell carcinoma4.71e-1314
cancer4.55e-08235
disease of cellular proliferation1.41e-07239


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.