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Coexpression cluster:C2626: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002046!4.96e-35!5;UBERON:0004117!4.96e-35!5;UBERON:0007689!4.96e-35!5;UBERON:0007123!4.96e-35!5;UBERON:0003091!4.96e-35!5;UBERON:0001829!5.99e-16!2;UBERON:0009722!6.86e-16!11;UBERON:0007690!6.86e-16!11;UBERON:0007023!9.13e-15!114;UBERON:0001044!7.58e-12!6;UBERON:0003293!7.58e-12!6;UBERON:0003294!7.58e-12!6;UBERON:0010047!7.58e-12!6;UBERON:0000167!7.58e-12!6;UBERON:0008814!1.19e-09!18;UBERON:0001736!7.56e-09!1;UBERON:0006298!7.56e-09!1;UBERON:0001831!8.15e-09!1;UBERON:0001567!8.15e-09!1;UBERON:0008801!8.15e-09!1;UBERON:0001301!8.78e-09!1;UBERON:0002079!1.18e-08!1;UBERON:0002135!1.59e-08!1;UBERON:0001154!1.84e-08!1;UBERON:0001153!1.84e-08!1;UBERON:0001045!1.84e-08!1;UBERON:0001882!3.28e-08!1;UBERON:0005403!3.28e-08!1;UBERON:0002363!3.79e-08!1;UBERON:0007645!3.79e-08!1;UBERON:0007647!3.79e-08!1;UBERON:0010115!3.79e-08!1;UBERON:0001155!1.15e-07!9;UBERON:0003408!2.75e-07!10;UBERON:0001007!5.78e-07!145;UBERON:0001555!5.78e-07!145;UBERON:0007026!5.78e-07!145
|ontology_enrichment_uberon=UBERON:0002046!4.96e-35!5;UBERON:0004117!4.96e-35!5;UBERON:0007689!4.96e-35!5;UBERON:0007123!4.96e-35!5;UBERON:0003091!4.96e-35!5;UBERON:0001829!5.99e-16!2;UBERON:0009722!6.86e-16!11;UBERON:0007690!6.86e-16!11;UBERON:0007023!9.13e-15!114;UBERON:0001044!7.58e-12!6;UBERON:0003293!7.58e-12!6;UBERON:0003294!7.58e-12!6;UBERON:0010047!7.58e-12!6;UBERON:0000167!7.58e-12!6;UBERON:0008814!1.19e-09!18;UBERON:0001736!7.56e-09!1;UBERON:0006298!7.56e-09!1;UBERON:0001831!8.15e-09!1;UBERON:0001567!8.15e-09!1;UBERON:0008801!8.15e-09!1;UBERON:0001301!8.78e-09!1;UBERON:0002079!1.18e-08!1;UBERON:0002135!1.59e-08!1;UBERON:0001154!1.84e-08!1;UBERON:0001153!1.84e-08!1;UBERON:0001045!1.84e-08!1;UBERON:0001882!3.28e-08!1;UBERON:0005403!3.28e-08!1;UBERON:0002363!3.79e-08!1;UBERON:0007645!3.79e-08!1;UBERON:0007647!3.79e-08!1;UBERON:0010115!3.79e-08!1;UBERON:0001155!1.15e-07!9;UBERON:0003408!2.75e-07!10;UBERON:0001007!5.78e-07!145;UBERON:0001555!5.78e-07!145;UBERON:0007026!5.78e-07!145
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}}
}}

Revision as of 15:37, 26 November 2012


Full id: C2626_retina_parotid_submaxillary_salivary_acute_papillary_neuroblastoma



Phase1 CAGE Peaks

Hg19::chr20:9147183..9147198,+p13@PLCB4
Hg19::chr20:9147214..9147221,+p26@PLCB4
Hg19::chr20:9147236..9147246,+p20@PLCB4
Hg19::chr20:9147247..9147252,+p28@PLCB4


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><br>uberon_data<br>disease_data<br>

Uber Anatomy
Ontology termp-valuen
thyroid gland4.96e-355
pharyngeal pouch4.96e-355
thyroid diverticulum4.96e-355
pharyngeal pouch 24.96e-355
thyroid primordium4.96e-355
major salivary gland5.99e-162
entire pharyngeal arch endoderm6.86e-1611
early pharyngeal endoderm6.86e-1611
adult organism9.13e-15114
saliva-secreting gland7.58e-126
gland of oral region7.58e-126
gland of foregut7.58e-126
oral gland7.58e-126
oral cavity7.58e-126
pharyngeal arch system1.19e-0918
submandibular gland7.56e-091
submandibular gland primordium7.56e-091
parotid gland8.15e-091
cheek8.15e-091
parotid gland primordium8.15e-091
epididymis8.78e-091
left cardiac atrium1.18e-081
mitral valve1.59e-081
vermiform appendix1.84e-081
caecum1.84e-081
midgut1.84e-081
nucleus accumbens3.28e-081
ventral striatum3.28e-081
dura mater3.79e-081
future meninx3.79e-081
ectomeninx3.79e-081
future dura mater3.79e-081
colon1.15e-079
gland of gut2.75e-0710
digestive system5.78e-07145
digestive tract5.78e-07145
primitive gut5.78e-07145
Disease
Ontology termp-valuen
acute myeloid leukemia6.50e-091
papillary adenocarcinoma9.46e-091


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.

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