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Coexpression cluster:C2629: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001049!3.01e-18!57;UBERON:0005068!3.01e-18!57;UBERON:0006241!3.01e-18!57;UBERON:0007135!3.01e-18!57;UBERON:0007023!8.95e-18!115;UBERON:0002616!3.89e-15!59;UBERON:0001893!1.22e-14!34;UBERON:0002020!1.47e-14!34;UBERON:0003528!1.47e-14!34;UBERON:0002780!1.78e-14!41;UBERON:0001890!1.78e-14!41;UBERON:0006240!1.78e-14!41;UBERON:0002791!5.73e-14!33;UBERON:0002346!6.02e-14!90;UBERON:0003080!9.69e-14!42;UBERON:0001017!2.02e-13!82;UBERON:0003075!2.95e-13!86;UBERON:0007284!2.95e-13!86;UBERON:0001869!3.27e-13!32;UBERON:0005743!6.31e-13!86;UBERON:0000955!1.05e-12!69;UBERON:0006238!1.05e-12!69;UBERON:0000073!1.20e-12!94;UBERON:0001016!1.20e-12!94;UBERON:0000477!3.09e-12!286;UBERON:0004111!3.72e-12!241;UBERON:0000924!7.13e-11!173;UBERON:0006601!7.13e-11!173;UBERON:0000033!1.54e-10!123;UBERON:0004121!2.90e-10!169;UBERON:0000153!4.46e-10!129;UBERON:0007811!4.46e-10!129;UBERON:0002619!6.39e-10!22;UBERON:0000468!6.84e-10!659;UBERON:0000922!5.53e-09!612;UBERON:0000956!8.02e-09!25;UBERON:0000203!8.02e-09!25;UBERON:0003056!8.21e-09!61;UBERON:0001950!1.01e-08!20;UBERON:0000483!1.56e-08!309;UBERON:0000119!2.73e-08!312;UBERON:0000025!4.70e-08!194;UBERON:0000923!6.87e-08!604;UBERON:0005291!6.87e-08!604;UBERON:0006598!6.87e-08!604;UBERON:0002532!6.87e-08!604;UBERON:0000467!7.12e-08!625;UBERON:0002308!7.38e-08!9;UBERON:0000125!7.38e-08!9;UBERON:0002050!9.46e-08!605;UBERON:0005423!9.46e-08!605;UBERON:0000480!9.83e-08!626;UBERON:0000481!7.61e-07!347
|ontology_enrichment_uberon=UBERON:0001049!3.01e-18!57;UBERON:0005068!3.01e-18!57;UBERON:0006241!3.01e-18!57;UBERON:0007135!3.01e-18!57;UBERON:0007023!8.95e-18!115;UBERON:0002616!3.89e-15!59;UBERON:0001893!1.22e-14!34;UBERON:0002020!1.47e-14!34;UBERON:0003528!1.47e-14!34;UBERON:0002780!1.78e-14!41;UBERON:0001890!1.78e-14!41;UBERON:0006240!1.78e-14!41;UBERON:0002791!5.73e-14!33;UBERON:0002346!6.02e-14!90;UBERON:0003080!9.69e-14!42;UBERON:0001017!2.02e-13!82;UBERON:0003075!2.95e-13!86;UBERON:0007284!2.95e-13!86;UBERON:0001869!3.27e-13!32;UBERON:0005743!6.31e-13!86;UBERON:0000955!1.05e-12!69;UBERON:0006238!1.05e-12!69;UBERON:0000073!1.20e-12!94;UBERON:0001016!1.20e-12!94;UBERON:0000477!3.09e-12!286;UBERON:0004111!3.72e-12!241;UBERON:0000924!7.13e-11!173;UBERON:0006601!7.13e-11!173;UBERON:0000033!1.54e-10!123;UBERON:0004121!2.90e-10!169;UBERON:0000153!4.46e-10!129;UBERON:0007811!4.46e-10!129;UBERON:0002619!6.39e-10!22;UBERON:0000468!6.84e-10!659;UBERON:0000922!5.53e-09!612;UBERON:0000956!8.02e-09!25;UBERON:0000203!8.02e-09!25;UBERON:0003056!8.21e-09!61;UBERON:0001950!1.01e-08!20;UBERON:0000483!1.56e-08!309;UBERON:0000119!2.73e-08!312;UBERON:0000025!4.70e-08!194;UBERON:0000923!6.87e-08!604;UBERON:0005291!6.87e-08!604;UBERON:0006598!6.87e-08!604;UBERON:0002532!6.87e-08!604;UBERON:0000467!7.12e-08!625;UBERON:0002308!7.38e-08!9;UBERON:0000125!7.38e-08!9;UBERON:0002050!9.46e-08!605;UBERON:0005423!9.46e-08!605;UBERON:0000480!9.83e-08!626;UBERON:0000481!7.61e-07!347
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}}
}}

Revision as of 18:28, 8 August 2012


Full id: C2629_Endothelial_adult_corpus_thalamus_optic_pons_substantia



Phase1 CAGE Peaks

Hg19::chr21:27284138..27284164,-p@chr21:27284138..27284164
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Hg19::chr21:27284346..27284358,-p@chr21:27284346..27284358
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Hg19::chr21:27284472..27284500,-p@chr21:27284472..27284500
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Hg19::chr21:27284505..27284518,-p@chr21:27284505..27284518
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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>


Cell Type
Ontology termp-valuen
endothelial cell of vascular tree1.56e-0724
Uber Anatomy
Ontology termp-valuen
neural tube3.01e-1857
neural rod3.01e-1857
future spinal cord3.01e-1857
neural keel3.01e-1857
adult organism8.95e-18115
regional part of brain3.89e-1559
telencephalon1.22e-1434
gray matter1.47e-1434
brain grey matter1.47e-1434
regional part of forebrain1.78e-1441
forebrain1.78e-1441
future forebrain1.78e-1441
regional part of telencephalon5.73e-1433
neurectoderm6.02e-1490
anterior neural tube9.69e-1442
central nervous system2.02e-1382
neural plate2.95e-1386
presumptive neural plate2.95e-1386
cerebral hemisphere3.27e-1332
brain1.05e-1269
future brain1.05e-1269
regional part of nervous system1.20e-1294
nervous system1.20e-1294
anatomical cluster3.09e-12286
anatomical conduit3.72e-12241
ectoderm7.13e-11173
presumptive ectoderm7.13e-11173
head1.54e-10123
ectoderm-derived structure2.90e-10169
anterior region of body4.46e-10129
craniocervical region4.46e-10129
regional part of cerebral cortex6.39e-1022
multi-cellular organism6.84e-10659
embryo5.53e-09612
cerebral cortex8.02e-0925
pallium8.02e-0925
pre-chordal neural plate8.21e-0961
neocortex1.01e-0820
epithelium1.56e-08309
cell layer2.73e-08312
tube4.70e-08194
germ layer6.87e-08604
embryonic tissue6.87e-08604
presumptive structure6.87e-08604
epiblast (generic)6.87e-08604
anatomical system7.12e-08625
nucleus of brain7.38e-089
neural nucleus7.38e-089
embryonic structure9.46e-08605
developing anatomical structure9.46e-08605
anatomical group9.83e-08626
multi-tissue structure7.61e-07347


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.