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Coexpression cluster:C1052

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Full id: C1052_signet_colon_mucinous_papillotubular_adenocarcinoma_gall_thyroid



Phase1 CAGE Peaks

Hg19::chr17:55185128..55185169,+p@chr17:55185128..55185169
+
Hg19::chr19:10142131..10142138,-p@chr19:10142131..10142138
-
Hg19::chr7:960463..960466,-p25@ADAP1
Hg19::chr7:960507..960519,-p9@ADAP1
Hg19::chr7:960521..960533,-p15@ADAP1
Hg19::chr9:140189285..140189325,+p@chr9:140189285..140189325
+
Hg19::chr9:85678229..85678237,+p@chr9:85678229..85678237
+
Hg19::chr9:85678281..85678294,+p@chr9:85678281..85678294
+


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 cell of gall bladder1.86e-092
epithelial cell of stomach5.80e-073
pneumocyte7.70e-073
Uber Anatomy
Ontology termp-valuen
biliary system1.43e-299
biliary tree1.43e-299
biliary bud1.43e-299
gallbladder5.76e-233
gall bladder primordium5.76e-233
hepatopancreatic ampulla5.26e-181
extrahepatic bile duct5.26e-181
common bile duct5.26e-181
duodenal papilla5.26e-181
maxillary sinus1.03e-171
paranasal sinus1.03e-171
small intestine4.11e-144
bile duct5.68e-126
digestive system duct5.68e-126
epithelium of foregut-midgut junction6.75e-1125
anatomical boundary6.75e-1125
hepatobiliary system6.75e-1125
foregut-midgut junction6.75e-1125
septum transversum6.75e-1125
gastrointestinal system1.60e-1025
bronchoalveolar duct junction1.22e-092
alveolar duct1.22e-092
bronchiole1.22e-092
intestine7.65e-0917
duct1.89e-0819
duodenum7.28e-072
pulmonary alveolus epithelium7.70e-073
alveolus7.70e-073
pulmonary lobule7.70e-073
lobule7.70e-073
alveolus of lung7.70e-073
alveolar system7.70e-073
pulmonary acinus7.70e-073
alveolar sac7.70e-073
alveolar wall7.70e-073


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.