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|ontology_enrichment_disease=DOID:0050687!1.09e-09!143;DOID:305!2.44e-07!106
|ontology_enrichment_disease=DOID:0050687!1.09e-09!143;DOID:305!2.44e-07!106
|ontology_enrichment_uberon=UBERON:0005743!6.10e-28!86;UBERON:0001049!2.63e-27!57;UBERON:0005068!2.63e-27!57;UBERON:0006241!2.63e-27!57;UBERON:0007135!2.63e-27!57;UBERON:0000073!1.44e-26!94;UBERON:0001016!1.44e-26!94;UBERON:0001017!9.55e-26!82;UBERON:0002346!7.93e-25!90;UBERON:0007023!1.14e-23!115;UBERON:0003075!1.37e-23!86;UBERON:0007284!1.37e-23!86;UBERON:0000955!5.15e-23!69;UBERON:0006238!5.15e-23!69;UBERON:0002780!1.70e-22!41;UBERON:0001890!1.70e-22!41;UBERON:0006240!1.70e-22!41;UBERON:0002616!9.02e-22!59;UBERON:0003080!1.10e-21!42;UBERON:0002020!3.66e-19!34;UBERON:0003528!3.66e-19!34;UBERON:0001893!8.98e-19!34;UBERON:0002619!2.34e-18!22;UBERON:0003056!3.90e-18!61;UBERON:0002791!6.31e-18!33;UBERON:0001869!7.21e-18!32;UBERON:0001950!1.23e-16!20;UBERON:0000924!7.87e-16!173;UBERON:0006601!7.87e-16!173;UBERON:0000956!2.36e-15!25;UBERON:0000203!2.36e-15!25;UBERON:0004121!8.28e-15!169;UBERON:0000153!1.17e-13!129;UBERON:0007811!1.17e-13!129;UBERON:0000033!2.17e-13!123;UBERON:0000200!2.00e-07!6;UBERON:0000025!6.78e-07!194;UBERON:0003076!7.32e-07!15;UBERON:0003057!7.32e-07!15
|ontology_enrichment_uberon=UBERON:0005743!6.10e-28!86;UBERON:0001049!2.63e-27!57;UBERON:0005068!2.63e-27!57;UBERON:0006241!2.63e-27!57;UBERON:0007135!2.63e-27!57;UBERON:0000073!1.44e-26!94;UBERON:0001016!1.44e-26!94;UBERON:0001017!9.55e-26!82;UBERON:0002346!7.93e-25!90;UBERON:0007023!1.14e-23!115;UBERON:0003075!1.37e-23!86;UBERON:0007284!1.37e-23!86;UBERON:0000955!5.15e-23!69;UBERON:0006238!5.15e-23!69;UBERON:0002780!1.70e-22!41;UBERON:0001890!1.70e-22!41;UBERON:0006240!1.70e-22!41;UBERON:0002616!9.02e-22!59;UBERON:0003080!1.10e-21!42;UBERON:0002020!3.66e-19!34;UBERON:0003528!3.66e-19!34;UBERON:0001893!8.98e-19!34;UBERON:0002619!2.34e-18!22;UBERON:0003056!3.90e-18!61;UBERON:0002791!6.31e-18!33;UBERON:0001869!7.21e-18!32;UBERON:0001950!1.23e-16!20;UBERON:0000924!7.87e-16!173;UBERON:0006601!7.87e-16!173;UBERON:0000956!2.36e-15!25;UBERON:0000203!2.36e-15!25;UBERON:0004121!8.28e-15!169;UBERON:0000153!1.17e-13!129;UBERON:0007811!1.17e-13!129;UBERON:0000033!2.17e-13!123;UBERON:0000200!2.00e-07!6;UBERON:0000025!6.78e-07!194;UBERON:0003076!7.32e-07!15;UBERON:0003057!7.32e-07!15
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}}
}}

Revision as of 19:42, 8 August 2012


Full id: C4061_throat_tongue_heart_skeletal_medial_left_occipital



Phase1 CAGE Peaks

Hg19::chr20:62127349..62127360,-p17@EEF1A2
Hg19::chr20:62127373..62127388,-p12@EEF1A2
Hg19::chr20:62129054..62129066,-p9@EEF1A2


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
neural tube2.63e-2757
neural rod2.63e-2757
future spinal cord2.63e-2757
neural keel2.63e-2757
regional part of nervous system1.44e-2694
nervous system1.44e-2694
central nervous system9.55e-2682
neurectoderm7.93e-2590
adult organism1.14e-23115
neural plate1.37e-2386
presumptive neural plate1.37e-2386
brain5.15e-2369
future brain5.15e-2369
regional part of forebrain1.70e-2241
forebrain1.70e-2241
future forebrain1.70e-2241
regional part of brain9.02e-2259
anterior neural tube1.10e-2142
gray matter3.66e-1934
brain grey matter3.66e-1934
telencephalon8.98e-1934
regional part of cerebral cortex2.34e-1822
pre-chordal neural plate3.90e-1861
regional part of telencephalon6.31e-1833
cerebral hemisphere7.21e-1832
neocortex1.23e-1620
ectoderm7.87e-16173
presumptive ectoderm7.87e-16173
cerebral cortex2.36e-1525
pallium2.36e-1525
ectoderm-derived structure8.28e-15169
anterior region of body1.17e-13129
craniocervical region1.17e-13129
head2.17e-13123
gyrus2.00e-076
tube6.78e-07194
posterior neural tube7.32e-0715
chordal neural plate7.32e-0715
Disease
Ontology termp-valuen
cell type cancer1.09e-09143
carcinoma2.44e-07106


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.