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Difference between revisions of "Coexpression cluster:C2473"

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|ontology_enrichment_disease=
 
|ontology_enrichment_disease=
 
|ontology_enrichment_uberon=UBERON:0000486!3.22e-09!82;UBERON:0000914!1.07e-08!83;UBERON:0002329!1.07e-08!83;UBERON:0003077!1.07e-08!83;UBERON:0003059!1.07e-08!83;UBERON:0007282!1.07e-08!83;UBERON:0009618!1.07e-08!83;UBERON:0007285!1.07e-08!83;UBERON:0004535!1.33e-08!110;UBERON:0005256!3.19e-08!143;UBERON:0001009!5.69e-08!113;UBERON:0004290!1.38e-07!70;UBERON:0001134!1.91e-07!61;UBERON:0002036!1.91e-07!61;UBERON:0003082!1.91e-07!61;UBERON:0002384!4.34e-07!375;UBERON:0002049!8.38e-07!79;UBERON:0007798!8.38e-07!79;UBERON:0002385!8.83e-07!63;UBERON:0001015!8.83e-07!63;UBERON:0000383!8.83e-07!63
 
|ontology_enrichment_uberon=UBERON:0000486!3.22e-09!82;UBERON:0000914!1.07e-08!83;UBERON:0002329!1.07e-08!83;UBERON:0003077!1.07e-08!83;UBERON:0003059!1.07e-08!83;UBERON:0007282!1.07e-08!83;UBERON:0009618!1.07e-08!83;UBERON:0007285!1.07e-08!83;UBERON:0004535!1.33e-08!110;UBERON:0005256!3.19e-08!143;UBERON:0001009!5.69e-08!113;UBERON:0004290!1.38e-07!70;UBERON:0001134!1.91e-07!61;UBERON:0002036!1.91e-07!61;UBERON:0003082!1.91e-07!61;UBERON:0002384!4.34e-07!375;UBERON:0002049!8.38e-07!79;UBERON:0007798!8.38e-07!79;UBERON:0002385!8.83e-07!63;UBERON:0001015!8.83e-07!63;UBERON:0000383!8.83e-07!63
 +
|tf_chipseq_enrich=ZBTB7A#51341;4:7.3519093078759:0.00034222354001599:0.00346466501509596
 
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}}
 
}}

Revision as of 02:40, 5 September 2012


Full id: C2473_Hair_Alveolar_Aortic_Astrocyte_Mesenchymal_Neutrophils_Prostate



Phase1 CAGE Peaks

Hg19::chr19:1036151..1036168,+p@chr19:1036151..1036168
+
Hg19::chr19:1036434..1036457,+p2@CNN2
Hg19::chr19:1037975..1037992,+p@chr19:1037975..1037992
+
Hg19::chr19:1038526..1038570,+p@chr19:1038526..1038570
+


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
somatic cell3.72e-31591
native cell1.70e-26722
animal cell1.47e-25679
eukaryotic cell1.47e-25679
non-terminally differentiated cell1.36e-16180
stem cell1.76e-14444
multi fate stem cell2.94e-14430
somatic stem cell7.03e-14436
contractile cell2.28e-1159
electrically responsive cell1.28e-1060
electrically active cell1.28e-1060
embryonic cell1.26e-09248
muscle precursor cell1.53e-0957
myoblast1.53e-0957
multi-potent skeletal muscle stem cell1.53e-0957
muscle cell1.80e-0954
mesodermal cell2.81e-09119
smooth muscle cell1.02e-0842
smooth muscle myoblast1.02e-0842
connective tissue cell3.65e-08365
fibroblast1.51e-0775
Uber Anatomy
Ontology termp-valuen
multilaminar epithelium3.22e-0982
somite1.07e-0883
paraxial mesoderm1.07e-0883
presomitic mesoderm1.07e-0883
presumptive segmental plate1.07e-0883
trunk paraxial mesoderm1.07e-0883
presumptive paraxial mesoderm1.07e-0883
cardiovascular system1.33e-08110
trunk mesenchyme3.19e-08143
circulatory system5.69e-08113
dermomyotome1.38e-0770
skeletal muscle tissue1.91e-0761
striated muscle tissue1.91e-0761
myotome1.91e-0761
connective tissue4.34e-07375
vasculature8.38e-0779
vascular system8.38e-0779
muscle tissue8.83e-0763
musculature8.83e-0763
musculature of body8.83e-0763


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)

{{{tfbs_overrepresentation_jaspar}}}



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
ZBTB7A#5134147.35190930787590.000342223540015990.00346466501509596



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.