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|ontology_enrichment_disease=DOID:1749!1.92e-16!14
|ontology_enrichment_disease=DOID:1749!1.92e-16!14
|ontology_enrichment_uberon=UBERON:0001004!5.00e-19!72;UBERON:0000166!1.37e-15!21;UBERON:0000161!4.92e-15!35;UBERON:0000165!1.57e-12!28;UBERON:0000930!1.57e-12!28;UBERON:0004119!1.91e-12!169;UBERON:0000925!1.91e-12!169;UBERON:0006595!1.91e-12!169;UBERON:0000065!1.71e-11!53;UBERON:0003135!8.85e-11!11;UBERON:0003102!9.96e-11!95;UBERON:0000365!2.19e-10!5;UBERON:0003729!1.82e-09!5;UBERON:0003101!1.27e-08!22;UBERON:0000079!1.27e-08!22;UBERON:0005910!1.53e-08!6;UBERON:0006562!1.60e-08!11;UBERON:0000344!1.96e-08!12;UBERON:0001007!3.07e-08!155;UBERON:0001555!3.07e-08!155;UBERON:0007026!3.07e-08!155;UBERON:0001444!1.05e-07!48;UBERON:0003343!1.36e-07!4;UBERON:0004785!1.36e-07!4;UBERON:0000974!1.50e-07!10;UBERON:0000078!1.88e-07!18;UBERON:0000464!2.40e-07!104;UBERON:0001042!3.38e-07!10;UBERON:0009145!3.38e-07!10;UBERON:0005178!3.47e-07!34;UBERON:0002224!3.47e-07!34;UBERON:0003408!4.09e-07!10;UBERON:0000473!6.00e-07!8;UBERON:0001044!6.79e-07!6;UBERON:0003293!6.79e-07!6;UBERON:0003294!6.79e-07!6;UBERON:0010047!6.79e-07!6;UBERON:0000167!6.79e-07!6;UBERON:0005181!6.96e-07!35;UBERON:0000072!7.36e-07!46;UBERON:0004815!7.75e-07!3;UBERON:0002031!7.75e-07!3
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}}
}}

Revision as of 17:42, 8 August 2012


Full id: C1848_Corneal_Keratinocyte_Small_Urothelial_Esophageal_Tracheal_Sebocyte



Phase1 CAGE Peaks

Hg19::chr1:209600864..209600901,+p@chr1:209600864..209600901
+
Hg19::chr1:209601463..209601482,+p@chr1:209601463..209601482
+
Hg19::chr1:209601486..209601506,+p@chr1:209601486..209601506
+
Hg19::chr1:209601525..209601530,+p@chr1:209601525..209601530
+
Hg19::chr1:209601594..209601611,+p@chr1:209601594..209601611
+


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
respiratory system5.00e-1972
oral opening1.37e-1521
orifice4.92e-1535
mouth1.57e-1228
stomodeum1.57e-1228
endoderm-derived structure1.91e-12169
endoderm1.91e-12169
presumptive endoderm1.91e-12169
respiratory tract1.71e-1153
male reproductive organ8.85e-1111
surface structure9.96e-1195
urothelium2.19e-105
mouth mucosa1.82e-095
male organism1.27e-0822
male reproductive system1.27e-0822
transitional epithelium1.53e-086
pharynx1.60e-0811
mucosa1.96e-0812
digestive system3.07e-08155
digestive tract3.07e-08155
primitive gut3.07e-08155
subdivision of head1.05e-0748
mucosa of oral region1.36e-074
respiratory system mucosa1.36e-074
neck1.50e-0710
mixed ectoderm/mesoderm/endoderm-derived structure1.88e-0718
anatomical space2.40e-07104
chordate pharynx3.38e-0710
pharyngeal region of foregut3.38e-0710
thoracic cavity element3.47e-0734
thoracic cavity3.47e-0734
gland of gut4.09e-0710
testis6.00e-078
saliva-secreting gland6.79e-076
gland of oral region6.79e-076
gland of foregut6.79e-076
oral gland6.79e-076
oral cavity6.79e-076
thoracic segment organ6.96e-0735
segment of respiratory tract7.36e-0746
lower respiratory tract epithelium7.75e-073
epithelium of bronchus7.75e-073
Disease
Ontology termp-valuen
squamous cell carcinoma1.92e-1614


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)

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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.