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Coexpression cluster:C4764: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0005743!3.22e-24!86;UBERON:0001017!3.75e-24!82;UBERON:0000073!2.85e-22!94;UBERON:0001016!2.85e-22!94;UBERON:0007023!7.00e-22!115;UBERON:0000475!1.20e-20!365;UBERON:0001049!2.48e-20!57;UBERON:0005068!2.48e-20!57;UBERON:0006241!2.48e-20!57;UBERON:0007135!2.48e-20!57;UBERON:0003075!9.85e-20!86;UBERON:0007284!9.85e-20!86;UBERON:0002616!1.71e-19!59;UBERON:0000955!8.39e-19!69;UBERON:0006238!8.39e-19!69;UBERON:0004121!1.30e-18!169;UBERON:0002346!6.47e-18!90;UBERON:0000924!1.74e-17!173;UBERON:0006601!1.74e-17!173;UBERON:0000468!4.09e-16!659;UBERON:0000033!5.19e-15!123;UBERON:0003080!2.56e-14!42;UBERON:0000153!3.73e-14!129;UBERON:0007811!3.73e-14!129;UBERON:0002020!5.86e-14!34;UBERON:0003528!5.86e-14!34;UBERON:0002780!6.64e-14!41;UBERON:0001890!6.64e-14!41;UBERON:0006240!6.64e-14!41;UBERON:0001893!1.19e-13!34;UBERON:0001869!1.81e-13!32;UBERON:0002791!2.52e-13!33;UBERON:0003056!4.34e-12!61;UBERON:0000481!5.46e-12!347;UBERON:0000467!5.54e-12!625;UBERON:0000480!1.09e-11!626;UBERON:0002619!2.00e-11!22;UBERON:0004111!3.40e-11!241;UBERON:0000956!5.36e-11!25;UBERON:0000203!5.36e-11!25;UBERON:0000119!5.99e-11!312;UBERON:0000483!6.03e-11!309;UBERON:0000062!8.04e-11!511;UBERON:0000025!1.11e-10!194;UBERON:0000477!1.18e-10!286;UBERON:0001950!2.10e-10!20;UBERON:0000922!1.46e-09!612;UBERON:0002050!1.32e-08!605;UBERON:0005423!1.32e-08!605;UBERON:0000923!2.66e-08!604;UBERON:0005291!2.66e-08!604;UBERON:0006598!2.66e-08!604;UBERON:0002532!2.66e-08!604;UBERON:0003103!1.63e-07!69;UBERON:0003076!2.43e-07!15;UBERON:0003057!2.43e-07!15
|ontology_enrichment_uberon=UBERON:0005743!3.22e-24!86;UBERON:0001017!3.75e-24!82;UBERON:0000073!2.85e-22!94;UBERON:0001016!2.85e-22!94;UBERON:0007023!7.00e-22!115;UBERON:0000475!1.20e-20!365;UBERON:0001049!2.48e-20!57;UBERON:0005068!2.48e-20!57;UBERON:0006241!2.48e-20!57;UBERON:0007135!2.48e-20!57;UBERON:0003075!9.85e-20!86;UBERON:0007284!9.85e-20!86;UBERON:0002616!1.71e-19!59;UBERON:0000955!8.39e-19!69;UBERON:0006238!8.39e-19!69;UBERON:0004121!1.30e-18!169;UBERON:0002346!6.47e-18!90;UBERON:0000924!1.74e-17!173;UBERON:0006601!1.74e-17!173;UBERON:0000468!4.09e-16!659;UBERON:0000033!5.19e-15!123;UBERON:0003080!2.56e-14!42;UBERON:0000153!3.73e-14!129;UBERON:0007811!3.73e-14!129;UBERON:0002020!5.86e-14!34;UBERON:0003528!5.86e-14!34;UBERON:0002780!6.64e-14!41;UBERON:0001890!6.64e-14!41;UBERON:0006240!6.64e-14!41;UBERON:0001893!1.19e-13!34;UBERON:0001869!1.81e-13!32;UBERON:0002791!2.52e-13!33;UBERON:0003056!4.34e-12!61;UBERON:0000481!5.46e-12!347;UBERON:0000467!5.54e-12!625;UBERON:0000480!1.09e-11!626;UBERON:0002619!2.00e-11!22;UBERON:0004111!3.40e-11!241;UBERON:0000956!5.36e-11!25;UBERON:0000203!5.36e-11!25;UBERON:0000119!5.99e-11!312;UBERON:0000483!6.03e-11!309;UBERON:0000062!8.04e-11!511;UBERON:0000025!1.11e-10!194;UBERON:0000477!1.18e-10!286;UBERON:0001950!2.10e-10!20;UBERON:0000922!1.46e-09!612;UBERON:0002050!1.32e-08!605;UBERON:0005423!1.32e-08!605;UBERON:0000923!2.66e-08!604;UBERON:0005291!2.66e-08!604;UBERON:0006598!2.66e-08!604;UBERON:0002532!2.66e-08!604;UBERON:0003103!1.63e-07!69;UBERON:0003076!2.43e-07!15;UBERON:0003057!2.43e-07!15
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}}
}}

Revision as of 20:18, 8 August 2012


Full id: C4764_occipital_temporal_duodenum_parietal_heart_Wilms_skeletal



Phase1 CAGE Peaks

Hg19::chr8:58907015..58907044,+p3@FAM110B
Hg19::chr8:58907055..58907099,+p1@FAM110B
Hg19::chr8:58907104..58907131,+p2@FAM110B


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
non-terminally differentiated cell9.16e-12180
fibroblast1.99e-0975
Uber Anatomy
Ontology termp-valuen
central nervous system3.75e-2482
regional part of nervous system2.85e-2294
nervous system2.85e-2294
adult organism7.00e-22115
organism subdivision1.20e-20365
neural tube2.48e-2057
neural rod2.48e-2057
future spinal cord2.48e-2057
neural keel2.48e-2057
neural plate9.85e-2086
presumptive neural plate9.85e-2086
regional part of brain1.71e-1959
brain8.39e-1969
future brain8.39e-1969
ectoderm-derived structure1.30e-18169
neurectoderm6.47e-1890
ectoderm1.74e-17173
presumptive ectoderm1.74e-17173
multi-cellular organism4.09e-16659
head5.19e-15123
anterior neural tube2.56e-1442
anterior region of body3.73e-14129
craniocervical region3.73e-14129
gray matter5.86e-1434
brain grey matter5.86e-1434
regional part of forebrain6.64e-1441
forebrain6.64e-1441
future forebrain6.64e-1441
telencephalon1.19e-1334
cerebral hemisphere1.81e-1332
regional part of telencephalon2.52e-1333
pre-chordal neural plate4.34e-1261
multi-tissue structure5.46e-12347
anatomical system5.54e-12625
anatomical group1.09e-11626
regional part of cerebral cortex2.00e-1122
anatomical conduit3.40e-11241
cerebral cortex5.36e-1125
pallium5.36e-1125
cell layer5.99e-11312
epithelium6.03e-11309
organ8.04e-11511
tube1.11e-10194
anatomical cluster1.18e-10286
neocortex2.10e-1020
embryo1.46e-09612
embryonic structure1.32e-08605
developing anatomical structure1.32e-08605
germ layer2.66e-08604
embryonic tissue2.66e-08604
presumptive structure2.66e-08604
epiblast (generic)2.66e-08604
compound organ1.63e-0769
posterior neural tube2.43e-0715
chordal neural plate2.43e-0715


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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