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Coexpression cluster:C2191: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0007023!6.63e-57!114;UBERON:0000955!3.55e-53!68;UBERON:0006238!3.55e-53!68;UBERON:0000073!6.14e-50!53;UBERON:0002616!6.14e-50!53;UBERON:0001017!1.08e-49!81;UBERON:0001049!1.48e-49!56;UBERON:0005068!1.48e-49!56;UBERON:0006241!1.48e-49!56;UBERON:0007135!1.48e-49!56;UBERON:0002780!4.50e-47!41;UBERON:0001890!4.50e-47!41;UBERON:0003080!4.50e-47!41;UBERON:0006240!4.50e-47!41;UBERON:0001016!1.89e-43!89;UBERON:0001893!8.06e-37!34;UBERON:0003075!2.57e-36!82;UBERON:0007284!2.57e-36!82;UBERON:0002346!4.54e-36!86;UBERON:0003528!1.13e-33!34;UBERON:0002020!1.13e-33!34;UBERON:0001869!1.14e-33!32;UBERON:0002791!3.15e-33!32;UBERON:0003056!3.24e-33!61;UBERON:0002619!1.73e-31!22;UBERON:0001950!1.71e-27!20;UBERON:0000956!3.36e-27!25;UBERON:0000203!3.36e-27!25;UBERON:0010371!3.84e-26!104;UBERON:0004121!4.87e-23!171;UBERON:0000924!4.87e-23!171;UBERON:0006601!4.87e-23!171;UBERON:0010314!1.07e-21!132;UBERON:0011216!1.20e-21!223;UBERON:0000200!2.75e-15!6;UBERON:0000025!8.58e-12!192;UBERON:0001894!1.03e-11!7;UBERON:0006222!1.03e-11!7;UBERON:0000477!2.81e-11!373;UBERON:0004111!3.36e-10!240;UBERON:0002784!3.48e-10!4;UBERON:0000481!2.41e-09!342;UBERON:0001870!1.49e-08!3;UBERON:0002021!1.74e-08!5;UBERON:0001872!2.13e-08!5;UBERON:0002420!2.80e-08!9;UBERON:0007245!2.80e-08!9;UBERON:0010009!2.80e-08!9;UBERON:0010011!2.80e-08!9;UBERON:0000454!2.80e-08!9;UBERON:0000349!4.43e-08!5;UBERON:0000125!5.52e-08!9;UBERON:0002308!5.52e-08!9;UBERON:0009663!1.76e-07!7;UBERON:0000483!2.07e-07!306;UBERON:0000119!3.21e-07!309;UBERON:0000064!3.58e-07!218;UBERON:0000922!5.12e-07!592;UBERON:0002050!8.80e-07!564
|ontology_enrichment_uberon=UBERON:0007023!6.63e-57!114;UBERON:0000955!3.55e-53!68;UBERON:0006238!3.55e-53!68;UBERON:0000073!6.14e-50!53;UBERON:0002616!6.14e-50!53;UBERON:0001017!1.08e-49!81;UBERON:0001049!1.48e-49!56;UBERON:0005068!1.48e-49!56;UBERON:0006241!1.48e-49!56;UBERON:0007135!1.48e-49!56;UBERON:0002780!4.50e-47!41;UBERON:0001890!4.50e-47!41;UBERON:0003080!4.50e-47!41;UBERON:0006240!4.50e-47!41;UBERON:0001016!1.89e-43!89;UBERON:0001893!8.06e-37!34;UBERON:0003075!2.57e-36!82;UBERON:0007284!2.57e-36!82;UBERON:0002346!4.54e-36!86;UBERON:0003528!1.13e-33!34;UBERON:0002020!1.13e-33!34;UBERON:0001869!1.14e-33!32;UBERON:0002791!3.15e-33!32;UBERON:0003056!3.24e-33!61;UBERON:0002619!1.73e-31!22;UBERON:0001950!1.71e-27!20;UBERON:0000956!3.36e-27!25;UBERON:0000203!3.36e-27!25;UBERON:0010371!3.84e-26!104;UBERON:0004121!4.87e-23!171;UBERON:0000924!4.87e-23!171;UBERON:0006601!4.87e-23!171;UBERON:0010314!1.07e-21!132;UBERON:0011216!1.20e-21!223;UBERON:0000200!2.75e-15!6;UBERON:0000025!8.58e-12!192;UBERON:0001894!1.03e-11!7;UBERON:0006222!1.03e-11!7;UBERON:0000477!2.81e-11!373;UBERON:0004111!3.36e-10!240;UBERON:0002784!3.48e-10!4;UBERON:0000481!2.41e-09!342;UBERON:0001870!1.49e-08!3;UBERON:0002021!1.74e-08!5;UBERON:0001872!2.13e-08!5;UBERON:0002420!2.80e-08!9;UBERON:0007245!2.80e-08!9;UBERON:0010009!2.80e-08!9;UBERON:0010011!2.80e-08!9;UBERON:0000454!2.80e-08!9;UBERON:0000349!4.43e-08!5;UBERON:0000125!5.52e-08!9;UBERON:0002308!5.52e-08!9;UBERON:0009663!1.76e-07!7;UBERON:0000483!2.07e-07!306;UBERON:0000119!3.21e-07!309;UBERON:0000064!3.58e-07!218;UBERON:0000922!5.12e-07!592;UBERON:0002050!8.80e-07!564
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}}
}}

Revision as of 15:21, 26 November 2012


Full id: C2191_pineal_medial_occipital_parietal_middle_temporal_postcentral



Phase1 CAGE Peaks

Hg19::chr12:121099167..121099179,+p@chr12:121099167..121099179
+
Hg19::chr20:48099892..48099917,-p@chr20:48099892..48099917
-
Hg19::chr20:48100770..48100790,-p2@KCNB1
Hg19::chr9:100854293..100854313,-p@chr9:100854293..100854313
-


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 organism6.63e-57114
brain3.55e-5368
future brain3.55e-5368
regional part of nervous system6.14e-5053
regional part of brain6.14e-5053
central nervous system1.08e-4981
neural tube1.48e-4956
neural rod1.48e-4956
future spinal cord1.48e-4956
neural keel1.48e-4956
regional part of forebrain4.50e-4741
forebrain4.50e-4741
anterior neural tube4.50e-4741
future forebrain4.50e-4741
nervous system1.89e-4389
telencephalon8.06e-3734
neural plate2.57e-3682
presumptive neural plate2.57e-3682
neurectoderm4.54e-3686
brain grey matter1.13e-3334
gray matter1.13e-3334
cerebral hemisphere1.14e-3332
regional part of telencephalon3.15e-3332
pre-chordal neural plate3.24e-3361
regional part of cerebral cortex1.73e-3122
neocortex1.71e-2720
cerebral cortex3.36e-2725
pallium3.36e-2725
ecto-epithelium3.84e-26104
ectoderm-derived structure4.87e-23171
ectoderm4.87e-23171
presumptive ectoderm4.87e-23171
structure with developmental contribution from neural crest1.07e-21132
organ system subdivision1.20e-21223
gyrus2.75e-156
tube8.58e-12192
diencephalon1.03e-117
future diencephalon1.03e-117
anatomical cluster2.81e-11373
anatomical conduit3.36e-10240
regional part of diencephalon3.48e-104
multi-tissue structure2.41e-09342
frontal cortex1.49e-083
occipital lobe1.74e-085
parietal lobe2.13e-085
basal ganglion2.80e-089
nuclear complex of neuraxis2.80e-089
aggregate regional part of brain2.80e-089
collection of basal ganglia2.80e-089
cerebral subcortex2.80e-089
limbic system4.43e-085
neural nucleus5.52e-089
nucleus of brain5.52e-089
telencephalic nucleus1.76e-077
epithelium2.07e-07306
cell layer3.21e-07309
organ part3.58e-07218
embryo5.12e-07592
embryonic structure8.80e-07564


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.

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