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|ontology_enrichment_disease=
|ontology_enrichment_disease=
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|ontology_enrichment_uberon=UBERON:0007023!1.31e-35!115;UBERON:0001049!1.87e-24!57;UBERON:0005068!1.87e-24!57;UBERON:0006241!1.87e-24!57;UBERON:0007135!1.87e-24!57;UBERON:0001017!3.69e-23!82;UBERON:0005743!5.80e-23!86;UBERON:0002780!9.00e-21!41;UBERON:0001890!9.00e-21!41;UBERON:0006240!9.00e-21!41;UBERON:0003080!1.48e-20!42;UBERON:0002616!2.13e-19!59;UBERON:0000073!2.31e-19!94;UBERON:0001016!2.31e-19!94;UBERON:0000955!2.13e-18!69;UBERON:0006238!2.13e-18!69;UBERON:0001893!4.25e-17!34;UBERON:0002020!7.84e-17!34;UBERON:0003528!7.84e-17!34;UBERON:0002791!1.95e-16!33;UBERON:0003075!7.05e-16!86;UBERON:0007284!7.05e-16!86;UBERON:0001869!7.41e-16!32;UBERON:0002619!1.12e-13!22;UBERON:0002346!1.12e-13!90;UBERON:0001950!1.16e-12!20;UBERON:0003056!1.55e-12!61;UBERON:0000956!1.58e-12!25;UBERON:0000203!1.58e-12!25;UBERON:0000153!2.40e-10!129;UBERON:0007811!2.40e-10!129;UBERON:0000033!1.28e-09!123;UBERON:0004121!9.70e-09!169;UBERON:0000924!1.03e-07!173;UBERON:0006601!1.03e-07!173
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}}

Revision as of 18:54, 8 August 2012


Full id: C3100_Neutrophils_occipital_Eosinophils_CD4_temporal_pineal_parietal



Phase1 CAGE Peaks

Hg19::chr11:121322987..121322998,+p5@SORL1
Hg19::chr11:121323000..121323046,+p1@SORL1
Hg19::chr11:121323108..121323117,+p8@SORL1


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 organism1.31e-35115
neural tube1.87e-2457
neural rod1.87e-2457
future spinal cord1.87e-2457
neural keel1.87e-2457
central nervous system3.69e-2382
regional part of forebrain9.00e-2141
forebrain9.00e-2141
future forebrain9.00e-2141
anterior neural tube1.48e-2042
regional part of brain2.13e-1959
regional part of nervous system2.31e-1994
nervous system2.31e-1994
brain2.13e-1869
future brain2.13e-1869
telencephalon4.25e-1734
gray matter7.84e-1734
brain grey matter7.84e-1734
regional part of telencephalon1.95e-1633
neural plate7.05e-1686
presumptive neural plate7.05e-1686
cerebral hemisphere7.41e-1632
regional part of cerebral cortex1.12e-1322
neurectoderm1.12e-1390
neocortex1.16e-1220
pre-chordal neural plate1.55e-1261
cerebral cortex1.58e-1225
pallium1.58e-1225
anterior region of body2.40e-10129
craniocervical region2.40e-10129
head1.28e-09123
ectoderm-derived structure9.70e-09169
ectoderm1.03e-07173
presumptive ectoderm1.03e-07173


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.