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Coexpression cluster:C2469: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!8.06e-64!115;UBERON:0007100!1.41e-18!27;UBERON:0004111!4.54e-17!241;UBERON:0001049!1.11e-16!57;UBERON:0005068!1.11e-16!57;UBERON:0006241!1.11e-16!57;UBERON:0007135!1.11e-16!57;UBERON:0000025!4.39e-16!194;UBERON:0003075!1.81e-15!86;UBERON:0007284!1.81e-15!86;UBERON:0000477!1.51e-14!286;UBERON:0002298!1.84e-14!8;UBERON:0002346!2.13e-14!90;UBERON:0000948!1.29e-13!24;UBERON:0005498!1.29e-13!24;UBERON:0004140!1.29e-13!24;UBERON:0009881!1.29e-13!24;UBERON:0004141!1.29e-13!24;UBERON:0003084!1.29e-13!24;UBERON:0007005!1.29e-13!24;UBERON:0004139!1.29e-13!24;UBERON:0004291!1.29e-13!24;UBERON:0002616!5.47e-13!59;UBERON:0003103!3.19e-11!69;UBERON:0005743!1.99e-10!86;UBERON:0001017!3.08e-10!82;UBERON:0000483!3.47e-10!309;UBERON:0000955!5.34e-10!69;UBERON:0006238!5.34e-10!69;UBERON:0000119!6.07e-10!312;UBERON:0003080!8.45e-10!42;UBERON:0003076!5.85e-09!15;UBERON:0003057!5.85e-09!15;UBERON:0002780!7.67e-09!41;UBERON:0001890!7.67e-09!41;UBERON:0006240!7.67e-09!41;UBERON:0000073!8.30e-09!94;UBERON:0001016!8.30e-09!94;UBERON:0000481!1.76e-08!347;UBERON:0003978!3.51e-08!3;UBERON:0009751!3.51e-08!3;UBERON:0000946!3.51e-08!3;UBERON:0002523!3.51e-08!3;UBERON:0005983!3.51e-08!3;UBERON:0002165!3.51e-08!3;UBERON:0002062!3.51e-08!3;UBERON:0007280!3.51e-08!3;UBERON:0004151!3.84e-08!3;UBERON:0000062!1.28e-07!511;UBERON:0006947!3.05e-07!3;UBERON:0004054!3.05e-07!3;UBERON:0001894!4.32e-07!7;UBERON:0006222!4.32e-07!7;UBERON:0002308!4.66e-07!9;UBERON:0000125!4.66e-07!9;UBERON:0003135!7.25e-07!11;UBERON:0004733!8.20e-07!12;UBERON:0002028!8.20e-07!12;UBERON:0007277!8.20e-07!12
|ontology_enrichment_uberon=UBERON:0007023!8.06e-64!115;UBERON:0007100!1.41e-18!27;UBERON:0004111!4.54e-17!241;UBERON:0001049!1.11e-16!57;UBERON:0005068!1.11e-16!57;UBERON:0006241!1.11e-16!57;UBERON:0007135!1.11e-16!57;UBERON:0000025!4.39e-16!194;UBERON:0003075!1.81e-15!86;UBERON:0007284!1.81e-15!86;UBERON:0000477!1.51e-14!286;UBERON:0002298!1.84e-14!8;UBERON:0002346!2.13e-14!90;UBERON:0000948!1.29e-13!24;UBERON:0005498!1.29e-13!24;UBERON:0004140!1.29e-13!24;UBERON:0009881!1.29e-13!24;UBERON:0004141!1.29e-13!24;UBERON:0003084!1.29e-13!24;UBERON:0007005!1.29e-13!24;UBERON:0004139!1.29e-13!24;UBERON:0004291!1.29e-13!24;UBERON:0002616!5.47e-13!59;UBERON:0003103!3.19e-11!69;UBERON:0005743!1.99e-10!86;UBERON:0001017!3.08e-10!82;UBERON:0000483!3.47e-10!309;UBERON:0000955!5.34e-10!69;UBERON:0006238!5.34e-10!69;UBERON:0000119!6.07e-10!312;UBERON:0003080!8.45e-10!42;UBERON:0003076!5.85e-09!15;UBERON:0003057!5.85e-09!15;UBERON:0002780!7.67e-09!41;UBERON:0001890!7.67e-09!41;UBERON:0006240!7.67e-09!41;UBERON:0000073!8.30e-09!94;UBERON:0001016!8.30e-09!94;UBERON:0000481!1.76e-08!347;UBERON:0003978!3.51e-08!3;UBERON:0009751!3.51e-08!3;UBERON:0000946!3.51e-08!3;UBERON:0002523!3.51e-08!3;UBERON:0005983!3.51e-08!3;UBERON:0002165!3.51e-08!3;UBERON:0002062!3.51e-08!3;UBERON:0007280!3.51e-08!3;UBERON:0004151!3.84e-08!3;UBERON:0000062!1.28e-07!511;UBERON:0006947!3.05e-07!3;UBERON:0004054!3.05e-07!3;UBERON:0001894!4.32e-07!7;UBERON:0006222!4.32e-07!7;UBERON:0002308!4.66e-07!9;UBERON:0000125!4.66e-07!9;UBERON:0003135!7.25e-07!11;UBERON:0004733!8.20e-07!12;UBERON:0002028!8.20e-07!12;UBERON:0007277!8.20e-07!12
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}}
}}

Revision as of 18:19, 8 August 2012


Full id: C2469_heart_left_testis_Cardiac_ovary_pineal_placenta



Phase1 CAGE Peaks

Hg19::chr18:64350315..64350320,-p@chr18:64350315..64350320
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Hg19::chr1:201328328..201328343,-p@chr1:201328328..201328343
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Hg19::chr1:20354880..20354902,+p3@PLA2G5
Hg19::chr1:20355001..20355016,+p2@PLA2G5


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
cardiac muscle cell1.33e-073
cardiac muscle myoblast1.33e-073
Uber Anatomy
Ontology termp-valuen
adult organism8.06e-64115
primary circulatory organ1.41e-1827
anatomical conduit4.54e-17241
neural tube1.11e-1657
neural rod1.11e-1657
future spinal cord1.11e-1657
neural keel1.11e-1657
tube4.39e-16194
neural plate1.81e-1586
presumptive neural plate1.81e-1586
anatomical cluster1.51e-14286
brainstem1.84e-148
neurectoderm2.13e-1490
heart1.29e-1324
primitive heart tube1.29e-1324
primary heart field1.29e-1324
anterior lateral plate mesoderm1.29e-1324
heart tube1.29e-1324
heart primordium1.29e-1324
cardiac mesoderm1.29e-1324
cardiogenic plate1.29e-1324
heart rudiment1.29e-1324
regional part of brain5.47e-1359
compound organ3.19e-1169
central nervous system3.08e-1082
epithelium3.47e-10309
brain5.34e-1069
future brain5.34e-1069
cell layer6.07e-10312
anterior neural tube8.45e-1042
posterior neural tube5.85e-0915
chordal neural plate5.85e-0915
regional part of forebrain7.67e-0941
forebrain7.67e-0941
future forebrain7.67e-0941
regional part of nervous system8.30e-0994
nervous system8.30e-0994
multi-tissue structure1.76e-08347
valve3.51e-083
cardiac mesenchyme3.51e-083
cardial valve3.51e-083
tunica intima3.51e-083
heart layer3.51e-083
endocardium3.51e-083
endocardial cushion3.51e-083
presumptive endocardium3.51e-083
cardiac chamber3.84e-083
organ1.28e-07511
male genital duct3.05e-073
internal male genitalia3.05e-073
diencephalon4.32e-077
future diencephalon4.32e-077
nucleus of brain4.66e-079
neural nucleus4.66e-079
male reproductive organ7.25e-0711
segmental subdivision of hindbrain8.20e-0712
hindbrain8.20e-0712
presumptive hindbrain8.20e-0712


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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