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|ontology_enrichment_disease=DOID:2531!8.44e-08!51;DOID:0060083!8.44e-08!51
|ontology_enrichment_disease=DOID:2531!8.44e-08!51;DOID:0060083!8.44e-08!51
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Revision as of 19:53, 8 August 2012


Full id: C4283_CD34_CD14_colon_adult_cord_acute_heart



Phase1 CAGE Peaks

Hg19::chr3:130569415..130569428,+p12@ATP2C1
Hg19::chr3:130569429..130569479,+p4@ATP2C1
Hg19::chr3:130569482..130569507,+p11@ATP2C1


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
adult organism2.14e-28115
hematopoietic system1.24e-16102
blood island1.24e-16102
hemolymphoid system8.42e-13112
neural tube1.04e-1257
neural rod1.04e-1257
future spinal cord1.04e-1257
neural keel1.04e-1257
anterior neural tube5.02e-1142
bone marrow6.84e-1180
regional part of forebrain1.03e-1041
forebrain1.03e-1041
future forebrain1.03e-1041
regional part of brain1.23e-0959
telencephalon1.30e-0934
gray matter1.31e-0934
brain grey matter1.31e-0934
brain1.34e-0969
future brain1.34e-0969
cerebral hemisphere2.40e-0932
regional part of telencephalon3.25e-0933
central nervous system1.29e-0882
bone element1.48e-0886
regional part of cerebral cortex4.85e-0822
blood6.48e-0815
haemolymphatic fluid6.48e-0815
organism substance6.48e-0815
neural plate9.56e-0886
presumptive neural plate9.56e-0886
neocortex3.91e-0720
cerebral cortex5.72e-0725
pallium5.72e-0725
regional part of nervous system7.94e-0794
nervous system7.94e-0794
skeletal element8.94e-07101
skeletal system8.94e-07101
Disease
Ontology termp-valuen
hematologic cancer8.44e-0851
immune system cancer8.44e-0851


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.