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|ontology_enrichment_disease=
|ontology_enrichment_disease=
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|ontology_enrichment_uberon=UBERON:0007023!9.54e-38!115;UBERON:0001049!2.57e-23!57;UBERON:0005068!2.57e-23!57;UBERON:0006241!2.57e-23!57;UBERON:0007135!2.57e-23!57;UBERON:0001017!2.04e-22!82;UBERON:0005743!5.38e-21!86;UBERON:0003080!1.50e-20!42;UBERON:0002780!1.93e-20!41;UBERON:0001890!1.93e-20!41;UBERON:0006240!1.93e-20!41;UBERON:0000073!3.29e-20!94;UBERON:0001016!3.29e-20!94;UBERON:0000955!1.13e-19!69;UBERON:0006238!1.13e-19!69;UBERON:0002616!2.94e-19!59;UBERON:0002020!1.39e-16!34;UBERON:0003528!1.39e-16!34;UBERON:0001893!1.82e-16!34;UBERON:0002791!5.25e-16!33;UBERON:0001869!1.93e-15!32;UBERON:0002346!5.05e-14!90;UBERON:0003075!1.36e-13!86;UBERON:0007284!1.36e-13!86;UBERON:0002619!1.66e-12!22;UBERON:0000956!1.12e-11!25;UBERON:0000203!1.12e-11!25;UBERON:0001950!1.91e-11!20;UBERON:0003056!5.10e-10!61;UBERON:0000153!9.47e-09!129;UBERON:0007811!9.47e-09!129;UBERON:0000924!3.57e-08!173;UBERON:0006601!3.57e-08!173;UBERON:0004121!8.83e-08!169;UBERON:0000033!1.04e-07!123;UBERON:0002390!1.46e-07!102;UBERON:0003061!1.46e-07!102
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}}
}}

Revision as of 18:03, 8 August 2012


Full id: C2166_pineal_cerebellum_pituitary_lung_Mast_spinal_occipital



Phase1 CAGE Peaks

Hg19::chr11:76156045..76156099,+p1@C11orf30
Hg19::chr2:233562028..233562056,+p1@GIGYF2
Hg19::chr2:71558882..71558936,+p1@ZNF638
Hg19::chr5:102455968..102456013,+p2@PPIP5K2


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 organism9.54e-38115
neural tube2.57e-2357
neural rod2.57e-2357
future spinal cord2.57e-2357
neural keel2.57e-2357
central nervous system2.04e-2282
anterior neural tube1.50e-2042
regional part of forebrain1.93e-2041
forebrain1.93e-2041
future forebrain1.93e-2041
regional part of nervous system3.29e-2094
nervous system3.29e-2094
brain1.13e-1969
future brain1.13e-1969
regional part of brain2.94e-1959
gray matter1.39e-1634
brain grey matter1.39e-1634
telencephalon1.82e-1634
regional part of telencephalon5.25e-1633
cerebral hemisphere1.93e-1532
neurectoderm5.05e-1490
neural plate1.36e-1386
presumptive neural plate1.36e-1386
regional part of cerebral cortex1.66e-1222
cerebral cortex1.12e-1125
pallium1.12e-1125
neocortex1.91e-1120
pre-chordal neural plate5.10e-1061
anterior region of body9.47e-09129
craniocervical region9.47e-09129
ectoderm3.57e-08173
presumptive ectoderm3.57e-08173
ectoderm-derived structure8.83e-08169
head1.04e-07123
hematopoietic system1.46e-07102
blood island1.46e-07102


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.

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