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Coexpression cluster:C4775: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!5.21e-36!115;UBERON:0001049!5.00e-25!57;UBERON:0005068!5.00e-25!57;UBERON:0006241!5.00e-25!57;UBERON:0007135!5.00e-25!57;UBERON:0001017!6.02e-23!82;UBERON:0000073!1.19e-22!94;UBERON:0001016!1.19e-22!94;UBERON:0005743!5.79e-22!86;UBERON:0002616!2.44e-21!59;UBERON:0000955!3.39e-20!69;UBERON:0006238!3.39e-20!69;UBERON:0003080!4.92e-19!42;UBERON:0002346!6.94e-19!90;UBERON:0002780!1.37e-18!41;UBERON:0001890!1.37e-18!41;UBERON:0006240!1.37e-18!41;UBERON:0003075!4.87e-17!86;UBERON:0007284!4.87e-17!86;UBERON:0001893!3.32e-16!34;UBERON:0002020!3.48e-16!34;UBERON:0003528!3.48e-16!34;UBERON:0002791!1.10e-15!33;UBERON:0001869!4.63e-15!32;UBERON:0000924!9.45e-15!173;UBERON:0006601!9.45e-15!173;UBERON:0004121!2.56e-13!169;UBERON:0000956!4.48e-12!25;UBERON:0000203!4.48e-12!25;UBERON:0002619!5.27e-12!22;UBERON:0003056!5.74e-12!61;UBERON:0000153!9.97e-12!129;UBERON:0007811!9.97e-12!129;UBERON:0000033!2.47e-11!123;UBERON:0001950!3.16e-11!20;UBERON:0000468!3.19e-11!659;UBERON:0000062!1.96e-10!511;UBERON:0000064!5.34e-10!219;UBERON:0000477!7.63e-10!286;UBERON:0000922!1.08e-09!612;UBERON:0004111!1.44e-09!241;UBERON:0002050!6.93e-09!605;UBERON:0005423!6.93e-09!605;UBERON:0000025!8.70e-09!194;UBERON:0000923!1.38e-08!604;UBERON:0005291!1.38e-08!604;UBERON:0006598!1.38e-08!604;UBERON:0002532!1.38e-08!604;UBERON:0000480!2.24e-08!626;UBERON:0000467!2.53e-08!625;UBERON:0003076!3.46e-07!15;UBERON:0003057!3.46e-07!15;UBERON:0004921!6.42e-07!129;UBERON:0004185!6.42e-07!129
|ontology_enrichment_uberon=UBERON:0007023!5.21e-36!115;UBERON:0001049!5.00e-25!57;UBERON:0005068!5.00e-25!57;UBERON:0006241!5.00e-25!57;UBERON:0007135!5.00e-25!57;UBERON:0001017!6.02e-23!82;UBERON:0000073!1.19e-22!94;UBERON:0001016!1.19e-22!94;UBERON:0005743!5.79e-22!86;UBERON:0002616!2.44e-21!59;UBERON:0000955!3.39e-20!69;UBERON:0006238!3.39e-20!69;UBERON:0003080!4.92e-19!42;UBERON:0002346!6.94e-19!90;UBERON:0002780!1.37e-18!41;UBERON:0001890!1.37e-18!41;UBERON:0006240!1.37e-18!41;UBERON:0003075!4.87e-17!86;UBERON:0007284!4.87e-17!86;UBERON:0001893!3.32e-16!34;UBERON:0002020!3.48e-16!34;UBERON:0003528!3.48e-16!34;UBERON:0002791!1.10e-15!33;UBERON:0001869!4.63e-15!32;UBERON:0000924!9.45e-15!173;UBERON:0006601!9.45e-15!173;UBERON:0004121!2.56e-13!169;UBERON:0000956!4.48e-12!25;UBERON:0000203!4.48e-12!25;UBERON:0002619!5.27e-12!22;UBERON:0003056!5.74e-12!61;UBERON:0000153!9.97e-12!129;UBERON:0007811!9.97e-12!129;UBERON:0000033!2.47e-11!123;UBERON:0001950!3.16e-11!20;UBERON:0000468!3.19e-11!659;UBERON:0000062!1.96e-10!511;UBERON:0000064!5.34e-10!219;UBERON:0000477!7.63e-10!286;UBERON:0000922!1.08e-09!612;UBERON:0004111!1.44e-09!241;UBERON:0002050!6.93e-09!605;UBERON:0005423!6.93e-09!605;UBERON:0000025!8.70e-09!194;UBERON:0000923!1.38e-08!604;UBERON:0005291!1.38e-08!604;UBERON:0006598!1.38e-08!604;UBERON:0002532!1.38e-08!604;UBERON:0000480!2.24e-08!626;UBERON:0000467!2.53e-08!625;UBERON:0003076!3.46e-07!15;UBERON:0003057!3.46e-07!15;UBERON:0004921!6.42e-07!129;UBERON:0004185!6.42e-07!129
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5934,0.157274,0.215705,0.252796,0.205954,0.361435
}}
}}

Revision as of 20:19, 8 August 2012


Full id: C4775_cerebellum_Mast_pancreas_seminal_optic_neuroectodermal_breast



Phase1 CAGE Peaks

Hg19::chr8:81786422..81786435,-p@chr8:81786422..81786435
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Hg19::chr8:81786444..81786482,-p@chr8:81786444..81786482
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Hg19::chr8:81786483..81786524,-p@chr8:81786483..81786524
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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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
adult organism5.21e-36115
neural tube5.00e-2557
neural rod5.00e-2557
future spinal cord5.00e-2557
neural keel5.00e-2557
central nervous system6.02e-2382
regional part of nervous system1.19e-2294
nervous system1.19e-2294
regional part of brain2.44e-2159
brain3.39e-2069
future brain3.39e-2069
anterior neural tube4.92e-1942
neurectoderm6.94e-1990
regional part of forebrain1.37e-1841
forebrain1.37e-1841
future forebrain1.37e-1841
neural plate4.87e-1786
presumptive neural plate4.87e-1786
telencephalon3.32e-1634
gray matter3.48e-1634
brain grey matter3.48e-1634
regional part of telencephalon1.10e-1533
cerebral hemisphere4.63e-1532
ectoderm9.45e-15173
presumptive ectoderm9.45e-15173
ectoderm-derived structure2.56e-13169
cerebral cortex4.48e-1225
pallium4.48e-1225
regional part of cerebral cortex5.27e-1222
pre-chordal neural plate5.74e-1261
anterior region of body9.97e-12129
craniocervical region9.97e-12129
head2.47e-11123
neocortex3.16e-1120
multi-cellular organism3.19e-11659
organ1.96e-10511
organ part5.34e-10219
anatomical cluster7.63e-10286
embryo1.08e-09612
anatomical conduit1.44e-09241
embryonic structure6.93e-09605
developing anatomical structure6.93e-09605
tube8.70e-09194
germ layer1.38e-08604
embryonic tissue1.38e-08604
presumptive structure1.38e-08604
epiblast (generic)1.38e-08604
anatomical group2.24e-08626
anatomical system2.53e-08625
posterior neural tube3.46e-0715
chordal neural plate3.46e-0715
subdivision of digestive tract6.42e-07129
endodermal part of digestive tract6.42e-07129


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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