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Coexpression cluster:C3102: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0010314!4.35e-26!132;UBERON:0001017!8.62e-25!81;UBERON:0001016!2.04e-23!89;UBERON:0001049!2.31e-23!56;UBERON:0005068!2.31e-23!56;UBERON:0006241!2.31e-23!56;UBERON:0007135!2.31e-23!56;UBERON:0003075!9.83e-23!82;UBERON:0007284!9.83e-23!82;UBERON:0000073!3.51e-22!53;UBERON:0002616!3.51e-22!53;UBERON:0000955!1.10e-21!68;UBERON:0006238!1.10e-21!68;UBERON:0002346!9.51e-21!86;UBERON:0002780!8.06e-19!41;UBERON:0001890!8.06e-19!41;UBERON:0003080!8.06e-19!41;UBERON:0006240!8.06e-19!41;UBERON:0004121!9.02e-18!171;UBERON:0000924!9.02e-18!171;UBERON:0006601!9.02e-18!171;UBERON:0007023!9.84e-18!114;UBERON:0003056!6.42e-17!61;UBERON:0003528!7.90e-17!34;UBERON:0002020!7.90e-17!34;UBERON:0000481!1.76e-16!342;UBERON:0001893!2.13e-16!34;UBERON:0010371!3.07e-16!104;UBERON:0001869!6.62e-16!32;UBERON:0002791!9.47e-16!32;UBERON:0000956!1.19e-12!25;UBERON:0000203!1.19e-12!25;UBERON:0002619!1.81e-11!22;UBERON:0000468!1.92e-11!656;UBERON:0000477!2.07e-11!373;UBERON:0000119!1.79e-10!309;UBERON:0001950!1.99e-10!20;UBERON:0000483!4.66e-10!306;UBERON:0011216!1.13e-09!223;UBERON:0000467!2.96e-09!624;UBERON:0007524!4.01e-09!73;UBERON:0000480!4.19e-09!625;UBERON:0003077!8.44e-09!72;UBERON:0007285!8.44e-09!72;UBERON:0000479!1.41e-08!773;UBERON:0002329!1.56e-08!71;UBERON:0003059!1.56e-08!71;UBERON:0007282!1.56e-08!71;UBERON:0004290!1.56e-08!71;UBERON:0009618!1.56e-08!71;UBERON:0002385!2.41e-08!64;UBERON:0001015!2.41e-08!64;UBERON:0000383!2.41e-08!64;UBERON:0001134!6.13e-08!62;UBERON:0002036!6.13e-08!62;UBERON:0003082!6.13e-08!62;UBERON:0000486!3.63e-07!83
|ontology_enrichment_uberon=UBERON:0010314!4.35e-26!132;UBERON:0001017!8.62e-25!81;UBERON:0001016!2.04e-23!89;UBERON:0001049!2.31e-23!56;UBERON:0005068!2.31e-23!56;UBERON:0006241!2.31e-23!56;UBERON:0007135!2.31e-23!56;UBERON:0003075!9.83e-23!82;UBERON:0007284!9.83e-23!82;UBERON:0000073!3.51e-22!53;UBERON:0002616!3.51e-22!53;UBERON:0000955!1.10e-21!68;UBERON:0006238!1.10e-21!68;UBERON:0002346!9.51e-21!86;UBERON:0002780!8.06e-19!41;UBERON:0001890!8.06e-19!41;UBERON:0003080!8.06e-19!41;UBERON:0006240!8.06e-19!41;UBERON:0004121!9.02e-18!171;UBERON:0000924!9.02e-18!171;UBERON:0006601!9.02e-18!171;UBERON:0007023!9.84e-18!114;UBERON:0003056!6.42e-17!61;UBERON:0003528!7.90e-17!34;UBERON:0002020!7.90e-17!34;UBERON:0000481!1.76e-16!342;UBERON:0001893!2.13e-16!34;UBERON:0010371!3.07e-16!104;UBERON:0001869!6.62e-16!32;UBERON:0002791!9.47e-16!32;UBERON:0000956!1.19e-12!25;UBERON:0000203!1.19e-12!25;UBERON:0002619!1.81e-11!22;UBERON:0000468!1.92e-11!656;UBERON:0000477!2.07e-11!373;UBERON:0000119!1.79e-10!309;UBERON:0001950!1.99e-10!20;UBERON:0000483!4.66e-10!306;UBERON:0011216!1.13e-09!223;UBERON:0000467!2.96e-09!624;UBERON:0007524!4.01e-09!73;UBERON:0000480!4.19e-09!625;UBERON:0003077!8.44e-09!72;UBERON:0007285!8.44e-09!72;UBERON:0000479!1.41e-08!773;UBERON:0002329!1.56e-08!71;UBERON:0003059!1.56e-08!71;UBERON:0007282!1.56e-08!71;UBERON:0004290!1.56e-08!71;UBERON:0009618!1.56e-08!71;UBERON:0002385!2.41e-08!64;UBERON:0001015!2.41e-08!64;UBERON:0000383!2.41e-08!64;UBERON:0001134!6.13e-08!62;UBERON:0002036!6.13e-08!62;UBERON:0003082!6.13e-08!62;UBERON:0000486!3.63e-07!83
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}}
}}

Revision as of 15:55, 26 November 2012


Full id: C3102_parietal_small_Fibroblast_Preadipocyte_occipital_temporal_duodenum



Phase1 CAGE Peaks

Hg19::chr11:121971466..121971520,-p1@ENST00000528986
Hg19::chr11:121971544..121971559,-p2@ENST00000528986
Hg19::chr11:121972490..121972521,-p2@ENST00000530955


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
structure with developmental contribution from neural crest4.35e-26132
central nervous system8.62e-2581
nervous system2.04e-2389
neural tube2.31e-2356
neural rod2.31e-2356
future spinal cord2.31e-2356
neural keel2.31e-2356
neural plate9.83e-2382
presumptive neural plate9.83e-2382
regional part of nervous system3.51e-2253
regional part of brain3.51e-2253
brain1.10e-2168
future brain1.10e-2168
neurectoderm9.51e-2186
regional part of forebrain8.06e-1941
forebrain8.06e-1941
anterior neural tube8.06e-1941
future forebrain8.06e-1941
ectoderm-derived structure9.02e-18171
ectoderm9.02e-18171
presumptive ectoderm9.02e-18171
adult organism9.84e-18114
pre-chordal neural plate6.42e-1761
brain grey matter7.90e-1734
gray matter7.90e-1734
multi-tissue structure1.76e-16342
telencephalon2.13e-1634
ecto-epithelium3.07e-16104
cerebral hemisphere6.62e-1632
regional part of telencephalon9.47e-1632
cerebral cortex1.19e-1225
pallium1.19e-1225
regional part of cerebral cortex1.81e-1122
multi-cellular organism1.92e-11656
anatomical cluster2.07e-11373
cell layer1.79e-10309
neocortex1.99e-1020
epithelium4.66e-10306
organ system subdivision1.13e-09223
anatomical system2.96e-09624
dense mesenchyme tissue4.01e-0973
anatomical group4.19e-09625
paraxial mesoderm8.44e-0972
presumptive paraxial mesoderm8.44e-0972
tissue1.41e-08773
somite1.56e-0871
presomitic mesoderm1.56e-0871
presumptive segmental plate1.56e-0871
dermomyotome1.56e-0871
trunk paraxial mesoderm1.56e-0871
muscle tissue2.41e-0864
musculature2.41e-0864
musculature of body2.41e-0864
skeletal muscle tissue6.13e-0862
striated muscle tissue6.13e-0862
myotome6.13e-0862
multilaminar epithelium3.63e-0783


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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