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Coexpression cluster:C1131: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!5.97e-53!115;UBERON:0001049!1.44e-24!57;UBERON:0005068!1.44e-24!57;UBERON:0006241!1.44e-24!57;UBERON:0007135!1.44e-24!57;UBERON:0002616!8.39e-24!59;UBERON:0002346!3.25e-21!90;UBERON:0003075!1.28e-20!86;UBERON:0007284!1.28e-20!86;UBERON:0003080!1.06e-18!42;UBERON:0000955!1.09e-18!69;UBERON:0006238!1.09e-18!69;UBERON:0002780!4.80e-18!41;UBERON:0001890!4.80e-18!41;UBERON:0006240!4.80e-18!41;UBERON:0001017!7.12e-18!82;UBERON:0005743!1.34e-17!86;UBERON:0003056!3.80e-15!61;UBERON:0002020!5.45e-15!34;UBERON:0003528!5.45e-15!34;UBERON:0001893!8.85e-15!34;UBERON:0000073!1.17e-14!94;UBERON:0001016!1.17e-14!94;UBERON:0002791!2.47e-14!33;UBERON:0000153!6.81e-14!129;UBERON:0007811!6.81e-14!129;UBERON:0001869!9.88e-14!32;UBERON:0000033!9.61e-13!123;UBERON:0002619!6.38e-12!22;UBERON:0001950!7.38e-11!20;UBERON:0000956!9.01e-11!25;UBERON:0000203!9.01e-11!25;UBERON:0000924!5.03e-10!173;UBERON:0006601!5.03e-10!173;UBERON:0004121!1.71e-09!169;UBERON:0003076!4.56e-07!15;UBERON:0003057!4.56e-07!15
|ontology_enrichment_uberon=UBERON:0007023!5.97e-53!115;UBERON:0001049!1.44e-24!57;UBERON:0005068!1.44e-24!57;UBERON:0006241!1.44e-24!57;UBERON:0007135!1.44e-24!57;UBERON:0002616!8.39e-24!59;UBERON:0002346!3.25e-21!90;UBERON:0003075!1.28e-20!86;UBERON:0007284!1.28e-20!86;UBERON:0003080!1.06e-18!42;UBERON:0000955!1.09e-18!69;UBERON:0006238!1.09e-18!69;UBERON:0002780!4.80e-18!41;UBERON:0001890!4.80e-18!41;UBERON:0006240!4.80e-18!41;UBERON:0001017!7.12e-18!82;UBERON:0005743!1.34e-17!86;UBERON:0003056!3.80e-15!61;UBERON:0002020!5.45e-15!34;UBERON:0003528!5.45e-15!34;UBERON:0001893!8.85e-15!34;UBERON:0000073!1.17e-14!94;UBERON:0001016!1.17e-14!94;UBERON:0002791!2.47e-14!33;UBERON:0000153!6.81e-14!129;UBERON:0007811!6.81e-14!129;UBERON:0001869!9.88e-14!32;UBERON:0000033!9.61e-13!123;UBERON:0002619!6.38e-12!22;UBERON:0001950!7.38e-11!20;UBERON:0000956!9.01e-11!25;UBERON:0000203!9.01e-11!25;UBERON:0000924!5.03e-10!173;UBERON:0006601!5.03e-10!173;UBERON:0004121!1.71e-09!169;UBERON:0003076!4.56e-07!15;UBERON:0003057!4.56e-07!15
|tf_chipseq_enrich=CTCF#10664;6:4.59450546263574:0.000247839207568764:0.00267452769159683!THAP1#55145;5:22.4065318591795:6.54085242188212e-07:2.9649309292055e-05!YY1#7528;5:3.50797910703847:0.00507257067280898:0.0236105806443309
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}}
}}

Revision as of 12:14, 5 September 2012


Full id: C1131_skeletal_salivary_lung_adipose_mature_vagina_aorta



Phase1 CAGE Peaks

Hg19::chr11:113930291..113930339,+p2@ZBTB16
Hg19::chr11:113930355..113930366,+p5@ZBTB16
Hg19::chr11:113930401..113930422,+p3@ZBTB16
Hg19::chr11:113930425..113930471,+p1@ZBTB16
Hg19::chr11:113930477..113930488,+p4@ZBTB16
Hg19::chr11:113986083..113986087,+p@chr11:113986083..113986087
+
Hg19::chr11:114037970..114037982,+p@chr11:114037970..114037982
+


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 organism5.97e-53115
neural tube1.44e-2457
neural rod1.44e-2457
future spinal cord1.44e-2457
neural keel1.44e-2457
regional part of brain8.39e-2459
neurectoderm3.25e-2190
neural plate1.28e-2086
presumptive neural plate1.28e-2086
anterior neural tube1.06e-1842
brain1.09e-1869
future brain1.09e-1869
regional part of forebrain4.80e-1841
forebrain4.80e-1841
future forebrain4.80e-1841
central nervous system7.12e-1882
pre-chordal neural plate3.80e-1561
gray matter5.45e-1534
brain grey matter5.45e-1534
telencephalon8.85e-1534
regional part of nervous system1.17e-1494
nervous system1.17e-1494
regional part of telencephalon2.47e-1433
anterior region of body6.81e-14129
craniocervical region6.81e-14129
cerebral hemisphere9.88e-1432
head9.61e-13123
regional part of cerebral cortex6.38e-1222
neocortex7.38e-1120
cerebral cortex9.01e-1125
pallium9.01e-1125
ectoderm5.03e-10173
presumptive ectoderm5.03e-10173
ectoderm-derived structure1.71e-09169
posterior neural tube4.56e-0715
chordal neural plate4.56e-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

(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
CTCF#1066464.594505462635740.0002478392075687640.00267452769159683
THAP1#55145522.40653185917956.54085242188212e-072.9649309292055e-05
YY1#752853.507979107038470.005072570672808980.0236105806443309



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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