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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!1.57e-35!115;UBERON:0001017!2.34e-14!82;UBERON:0005743!9.53e-14!86;UBERON:0001049!6.20e-13!57;UBERON:0005068!6.20e-13!57;UBERON:0006241!6.20e-13!57;UBERON:0007135!6.20e-13!57;UBERON:0003080!2.81e-12!42;UBERON:0000073!7.58e-12!94;UBERON:0001016!7.58e-12!94;UBERON:0002780!9.36e-12!41;UBERON:0001890!9.36e-12!41;UBERON:0006240!9.36e-12!41;UBERON:0000955!2.98e-11!69;UBERON:0006238!2.98e-11!69;UBERON:0002616!3.14e-10!59;UBERON:0002193!3.17e-10!112;UBERON:0002390!3.33e-10!102;UBERON:0003061!3.33e-10!102;UBERON:0002619!6.17e-10!22;UBERON:0002020!9.90e-10!34;UBERON:0003528!9.90e-10!34;UBERON:0001893!1.70e-09!34;UBERON:0001869!2.55e-09!32;UBERON:0002791!3.25e-09!33;UBERON:0001950!4.84e-09!20;UBERON:0000956!7.70e-08!25;UBERON:0000203!7.70e-08!25;UBERON:0001474!5.40e-07!86;UBERON:0002371!8.09e-07!80
|ontology_enrichment_uberon=UBERON:0007023!1.57e-35!115;UBERON:0001017!2.34e-14!82;UBERON:0005743!9.53e-14!86;UBERON:0001049!6.20e-13!57;UBERON:0005068!6.20e-13!57;UBERON:0006241!6.20e-13!57;UBERON:0007135!6.20e-13!57;UBERON:0003080!2.81e-12!42;UBERON:0000073!7.58e-12!94;UBERON:0001016!7.58e-12!94;UBERON:0002780!9.36e-12!41;UBERON:0001890!9.36e-12!41;UBERON:0006240!9.36e-12!41;UBERON:0000955!2.98e-11!69;UBERON:0006238!2.98e-11!69;UBERON:0002616!3.14e-10!59;UBERON:0002193!3.17e-10!112;UBERON:0002390!3.33e-10!102;UBERON:0003061!3.33e-10!102;UBERON:0002619!6.17e-10!22;UBERON:0002020!9.90e-10!34;UBERON:0003528!9.90e-10!34;UBERON:0001893!1.70e-09!34;UBERON:0001869!2.55e-09!32;UBERON:0002791!3.25e-09!33;UBERON:0001950!4.84e-09!20;UBERON:0000956!7.70e-08!25;UBERON:0000203!7.70e-08!25;UBERON:0001474!5.40e-07!86;UBERON:0002371!8.09e-07!80
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}}
}}

Revision as of 20:05, 8 August 2012


Full id: C4505_acute_pineal_skin_occipital_parietal_colon_brain



Phase1 CAGE Peaks

Hg19::chr5:53606354..53606372,-p3@ARL15
Hg19::chr5:53606375..53606394,-p2@ARL15
Hg19::chr5:53606396..53606431,-p1@ARL15


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><br>


Uber Anatomy
Ontology termp-valuen
adult organism1.57e-35115
central nervous system2.34e-1482
neural tube6.20e-1357
neural rod6.20e-1357
future spinal cord6.20e-1357
neural keel6.20e-1357
anterior neural tube2.81e-1242
regional part of nervous system7.58e-1294
nervous system7.58e-1294
regional part of forebrain9.36e-1241
forebrain9.36e-1241
future forebrain9.36e-1241
brain2.98e-1169
future brain2.98e-1169
regional part of brain3.14e-1059
hemolymphoid system3.17e-10112
hematopoietic system3.33e-10102
blood island3.33e-10102
regional part of cerebral cortex6.17e-1022
gray matter9.90e-1034
brain grey matter9.90e-1034
telencephalon1.70e-0934
cerebral hemisphere2.55e-0932
regional part of telencephalon3.25e-0933
neocortex4.84e-0920
cerebral cortex7.70e-0825
pallium7.70e-0825
bone element5.40e-0786
bone marrow8.09e-0780


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.