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Coexpression cluster:C4361: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0007023!1.80e-58!114;UBERON:0001049!1.80e-42!56;UBERON:0005068!1.80e-42!56;UBERON:0006241!1.80e-42!56;UBERON:0007135!1.80e-42!56;UBERON:0000073!1.94e-38!53;UBERON:0002616!1.94e-38!53;UBERON:0001017!2.06e-37!81;UBERON:0002780!4.43e-33!41;UBERON:0001890!4.43e-33!41;UBERON:0003080!4.43e-33!41;UBERON:0006240!4.43e-33!41;UBERON:0003528!8.99e-33!34;UBERON:0002020!8.99e-33!34;UBERON:0001893!6.03e-32!34;UBERON:0001016!7.77e-32!89;UBERON:0002791!4.34e-30!32;UBERON:0001869!1.03e-29!32;UBERON:0003075!1.83e-29!82;UBERON:0007284!1.83e-29!82;UBERON:0000955!3.93e-29!68;UBERON:0006238!3.93e-29!68;UBERON:0002346!2.67e-27!86;UBERON:0010314!1.04e-23!132;UBERON:0010371!4.20e-22!104;UBERON:0000956!9.13e-22!25;UBERON:0000203!9.13e-22!25;UBERON:0002619!2.70e-21!22;UBERON:0003056!1.28e-19!61;UBERON:0001950!1.00e-18!20;UBERON:0011216!8.34e-18!223;UBERON:0004121!1.62e-15!171;UBERON:0000924!1.62e-15!171;UBERON:0006601!1.62e-15!171;UBERON:0000125!1.00e-12!9;UBERON:0002308!1.00e-12!9;UBERON:0002420!1.87e-12!9;UBERON:0007245!1.87e-12!9;UBERON:0010009!1.87e-12!9;UBERON:0010011!1.87e-12!9;UBERON:0000454!1.87e-12!9;UBERON:0000025!1.28e-11!192;UBERON:0000477!1.77e-11!373;UBERON:0003076!2.21e-10!15;UBERON:0003057!2.21e-10!15;UBERON:0004111!4.87e-10!240;UBERON:0009663!5.02e-10!7;UBERON:0002298!4.19e-09!6;UBERON:0001871!6.07e-09!6;UBERON:0000064!6.70e-09!218;UBERON:0000062!7.55e-09!503;UBERON:0000481!2.20e-08!342;UBERON:0000468!6.26e-08!656;UBERON:0000349!1.05e-07!5;UBERON:0004733!7.87e-07!12;UBERON:0002028!7.87e-07!12;UBERON:0007277!7.87e-07!12;UBERON:0001872!9.44e-07!5
|ontology_enrichment_uberon=UBERON:0007023!1.80e-58!114;UBERON:0001049!1.80e-42!56;UBERON:0005068!1.80e-42!56;UBERON:0006241!1.80e-42!56;UBERON:0007135!1.80e-42!56;UBERON:0000073!1.94e-38!53;UBERON:0002616!1.94e-38!53;UBERON:0001017!2.06e-37!81;UBERON:0002780!4.43e-33!41;UBERON:0001890!4.43e-33!41;UBERON:0003080!4.43e-33!41;UBERON:0006240!4.43e-33!41;UBERON:0003528!8.99e-33!34;UBERON:0002020!8.99e-33!34;UBERON:0001893!6.03e-32!34;UBERON:0001016!7.77e-32!89;UBERON:0002791!4.34e-30!32;UBERON:0001869!1.03e-29!32;UBERON:0003075!1.83e-29!82;UBERON:0007284!1.83e-29!82;UBERON:0000955!3.93e-29!68;UBERON:0006238!3.93e-29!68;UBERON:0002346!2.67e-27!86;UBERON:0010314!1.04e-23!132;UBERON:0010371!4.20e-22!104;UBERON:0000956!9.13e-22!25;UBERON:0000203!9.13e-22!25;UBERON:0002619!2.70e-21!22;UBERON:0003056!1.28e-19!61;UBERON:0001950!1.00e-18!20;UBERON:0011216!8.34e-18!223;UBERON:0004121!1.62e-15!171;UBERON:0000924!1.62e-15!171;UBERON:0006601!1.62e-15!171;UBERON:0000125!1.00e-12!9;UBERON:0002308!1.00e-12!9;UBERON:0002420!1.87e-12!9;UBERON:0007245!1.87e-12!9;UBERON:0010009!1.87e-12!9;UBERON:0010011!1.87e-12!9;UBERON:0000454!1.87e-12!9;UBERON:0000025!1.28e-11!192;UBERON:0000477!1.77e-11!373;UBERON:0003076!2.21e-10!15;UBERON:0003057!2.21e-10!15;UBERON:0004111!4.87e-10!240;UBERON:0009663!5.02e-10!7;UBERON:0002298!4.19e-09!6;UBERON:0001871!6.07e-09!6;UBERON:0000064!6.70e-09!218;UBERON:0000062!7.55e-09!503;UBERON:0000481!2.20e-08!342;UBERON:0000468!6.26e-08!656;UBERON:0000349!1.05e-07!5;UBERON:0004733!7.87e-07!12;UBERON:0002028!7.87e-07!12;UBERON:0007277!7.87e-07!12;UBERON:0001872!9.44e-07!5
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}}
}}

Revision as of 16:42, 26 November 2012


Full id: C4361_heart_Neural_mature_skin_spinal_hippocampus_caudate



Phase1 CAGE Peaks

Hg19::chr4:114214481..114214493,+p17@ANK2
Hg19::chr4:114214538..114214547,+p16@ANK2
Hg19::chr4:114214566..114214602,+p3@ANK2


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><br>

Uber Anatomy
Ontology termp-valuen
adult organism1.80e-58114
neural tube1.80e-4256
neural rod1.80e-4256
future spinal cord1.80e-4256
neural keel1.80e-4256
regional part of nervous system1.94e-3853
regional part of brain1.94e-3853
central nervous system2.06e-3781
regional part of forebrain4.43e-3341
forebrain4.43e-3341
anterior neural tube4.43e-3341
future forebrain4.43e-3341
brain grey matter8.99e-3334
gray matter8.99e-3334
telencephalon6.03e-3234
nervous system7.77e-3289
regional part of telencephalon4.34e-3032
cerebral hemisphere1.03e-2932
neural plate1.83e-2982
presumptive neural plate1.83e-2982
brain3.93e-2968
future brain3.93e-2968
neurectoderm2.67e-2786
structure with developmental contribution from neural crest1.04e-23132
ecto-epithelium4.20e-22104
cerebral cortex9.13e-2225
pallium9.13e-2225
regional part of cerebral cortex2.70e-2122
pre-chordal neural plate1.28e-1961
neocortex1.00e-1820
organ system subdivision8.34e-18223
ectoderm-derived structure1.62e-15171
ectoderm1.62e-15171
presumptive ectoderm1.62e-15171
neural nucleus1.00e-129
nucleus of brain1.00e-129
basal ganglion1.87e-129
nuclear complex of neuraxis1.87e-129
aggregate regional part of brain1.87e-129
collection of basal ganglia1.87e-129
cerebral subcortex1.87e-129
tube1.28e-11192
anatomical cluster1.77e-11373
posterior neural tube2.21e-1015
chordal neural plate2.21e-1015
anatomical conduit4.87e-10240
telencephalic nucleus5.02e-107
brainstem4.19e-096
temporal lobe6.07e-096
organ part6.70e-09218
organ7.55e-09503
multi-tissue structure2.20e-08342
multi-cellular organism6.26e-08656
limbic system1.05e-075
segmental subdivision of hindbrain7.87e-0712
hindbrain7.87e-0712
presumptive hindbrain7.87e-0712
parietal lobe9.44e-075


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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