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Coexpression cluster:C2509: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!2.06e-34!115;UBERON:0001009!1.99e-18!113;UBERON:0004535!4.41e-17!110;UBERON:0001049!7.65e-14!57;UBERON:0005068!7.65e-14!57;UBERON:0006241!7.65e-14!57;UBERON:0007135!7.65e-14!57;UBERON:0000055!7.66e-14!69;UBERON:0000025!7.46e-13!194;UBERON:0001986!1.07e-12!18;UBERON:0004638!1.07e-12!18;UBERON:0004852!1.07e-12!18;UBERON:0003075!1.55e-12!86;UBERON:0007284!1.55e-12!86;UBERON:0002049!4.18e-12!79;UBERON:0007798!4.18e-12!79;UBERON:0004872!4.40e-12!84;UBERON:0004111!5.25e-12!241;UBERON:0002616!7.48e-12!59;UBERON:0001981!6.12e-11!60;UBERON:0007500!6.12e-11!60;UBERON:0004537!6.12e-11!60;UBERON:0006965!6.12e-11!60;UBERON:0003080!6.96e-11!42;UBERON:0002346!2.32e-10!90;UBERON:0002780!2.41e-10!41;UBERON:0001890!2.41e-10!41;UBERON:0006240!2.41e-10!41;UBERON:0000487!3.87e-10!22;UBERON:0000477!8.69e-10!286;UBERON:0002020!1.62e-09!34;UBERON:0003528!1.62e-09!34;UBERON:0005743!2.36e-09!86;UBERON:0001017!2.46e-09!82;UBERON:0000955!4.77e-09!69;UBERON:0006238!4.77e-09!69;UBERON:0001893!4.82e-09!34;UBERON:0002791!8.37e-09!33;UBERON:0001869!1.41e-08!32;UBERON:0000073!1.62e-08!94;UBERON:0001016!1.62e-08!94;UBERON:0003056!6.22e-08!61;UBERON:0006914!8.48e-08!25;UBERON:0002619!1.03e-07!22;UBERON:0003915!2.91e-07!9;UBERON:0004700!2.91e-07!9;UBERON:0001917!2.91e-07!9;UBERON:0001950!7.16e-07!20
|ontology_enrichment_uberon=UBERON:0007023!2.06e-34!115;UBERON:0001009!1.99e-18!113;UBERON:0004535!4.41e-17!110;UBERON:0001049!7.65e-14!57;UBERON:0005068!7.65e-14!57;UBERON:0006241!7.65e-14!57;UBERON:0007135!7.65e-14!57;UBERON:0000055!7.66e-14!69;UBERON:0000025!7.46e-13!194;UBERON:0001986!1.07e-12!18;UBERON:0004638!1.07e-12!18;UBERON:0004852!1.07e-12!18;UBERON:0003075!1.55e-12!86;UBERON:0007284!1.55e-12!86;UBERON:0002049!4.18e-12!79;UBERON:0007798!4.18e-12!79;UBERON:0004872!4.40e-12!84;UBERON:0004111!5.25e-12!241;UBERON:0002616!7.48e-12!59;UBERON:0001981!6.12e-11!60;UBERON:0007500!6.12e-11!60;UBERON:0004537!6.12e-11!60;UBERON:0006965!6.12e-11!60;UBERON:0003080!6.96e-11!42;UBERON:0002346!2.32e-10!90;UBERON:0002780!2.41e-10!41;UBERON:0001890!2.41e-10!41;UBERON:0006240!2.41e-10!41;UBERON:0000487!3.87e-10!22;UBERON:0000477!8.69e-10!286;UBERON:0002020!1.62e-09!34;UBERON:0003528!1.62e-09!34;UBERON:0005743!2.36e-09!86;UBERON:0001017!2.46e-09!82;UBERON:0000955!4.77e-09!69;UBERON:0006238!4.77e-09!69;UBERON:0001893!4.82e-09!34;UBERON:0002791!8.37e-09!33;UBERON:0001869!1.41e-08!32;UBERON:0000073!1.62e-08!94;UBERON:0001016!1.62e-08!94;UBERON:0003056!6.22e-08!61;UBERON:0006914!8.48e-08!25;UBERON:0002619!1.03e-07!22;UBERON:0003915!2.91e-07!9;UBERON:0004700!2.91e-07!9;UBERON:0001917!2.91e-07!9;UBERON:0001950!7.16e-07!20
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}}
}}

Revision as of 18:21, 8 August 2012


Full id: C2509_adipose_heart_lung_Renal_Endothelial_CD4_Hepatic



Phase1 CAGE Peaks

Hg19::chr1:101702417..101702481,+p1@S1PR1
Hg19::chr1:101702482..101702493,+p6@S1PR1
Hg19::chr1:101702501..101702512,+p5@S1PR1
Hg19::chr1:101702564..101702584,+p2@S1PR1


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>

Uber Anatomy
Ontology termp-valuen
adult organism2.06e-34115
circulatory system1.99e-18113
cardiovascular system4.41e-17110
neural tube7.65e-1457
neural rod7.65e-1457
future spinal cord7.65e-1457
neural keel7.65e-1457
vessel7.66e-1469
tube7.46e-13194
endothelium1.07e-1218
blood vessel endothelium1.07e-1218
cardiovascular system endothelium1.07e-1218
neural plate1.55e-1286
presumptive neural plate1.55e-1286
vasculature4.18e-1279
vascular system4.18e-1279
splanchnic layer of lateral plate mesoderm4.40e-1284
anatomical conduit5.25e-12241
regional part of brain7.48e-1259
blood vessel6.12e-1160
epithelial tube open at both ends6.12e-1160
blood vasculature6.12e-1160
vascular cord6.12e-1160
anterior neural tube6.96e-1142
neurectoderm2.32e-1090
regional part of forebrain2.41e-1041
forebrain2.41e-1041
future forebrain2.41e-1041
simple squamous epithelium3.87e-1022
anatomical cluster8.69e-10286
gray matter1.62e-0934
brain grey matter1.62e-0934
central nervous system2.46e-0982
brain4.77e-0969
future brain4.77e-0969
telencephalon4.82e-0934
regional part of telencephalon8.37e-0933
cerebral hemisphere1.41e-0832
regional part of nervous system1.62e-0894
nervous system1.62e-0894
pre-chordal neural plate6.22e-0861
squamous epithelium8.48e-0825
regional part of cerebral cortex1.03e-0722
endothelial tube2.91e-079
arterial system endothelium2.91e-079
endothelium of artery2.91e-079
neocortex7.16e-0720


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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