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Coexpression cluster:C1114: Difference between revisions

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|gostat_on_coexpression_clusters=GO:0016363!nuclear matrix!0.000280759068628149!4602;116154$GO:0031981!nuclear lumen!0.0222802878898693!4602;116154$GO:0031974!membrane-enclosed lumen!0.0222802878898693!4602;116154$GO:0043233!organelle lumen!0.0222802878898693!4602;116154$GO:0004864!protein phosphatase inhibitor activity!0.0222802878898693!116154$GO:0019212!phosphatase inhibitor activity!0.0222802878898693!116154$GO:0044428!nuclear part!0.0222802878898693!4602;116154$GO:0005634!nucleus!0.0354264579927823!220929;4602;116154$GO:0019888!protein phosphatase regulator activity!0.0361200255105227!116154$GO:0019208!phosphatase regulator activity!0.0361200255105227!116154
|gostat_on_coexpression_clusters=GO:0016363!nuclear matrix!0.000280759068628149!4602;116154$GO:0031981!nuclear lumen!0.0222802878898693!4602;116154$GO:0031974!membrane-enclosed lumen!0.0222802878898693!4602;116154$GO:0043233!organelle lumen!0.0222802878898693!4602;116154$GO:0004864!protein phosphatase inhibitor activity!0.0222802878898693!116154$GO:0019212!phosphatase inhibitor activity!0.0222802878898693!116154$GO:0044428!nuclear part!0.0222802878898693!4602;116154$GO:0005634!nucleus!0.0354264579927823!220929;4602;116154$GO:0019888!protein phosphatase regulator activity!0.0361200255105227!116154$GO:0019208!phosphatase regulator activity!0.0361200255105227!116154
|id=C1114
|id=C1114
|ontology_enrichment_celltype=CL:0000763!2.53e-56!112;CL:0000049!2.53e-56!112;CL:0000037!5.27e-47!172;CL:0000566!5.27e-47!172;CL:0002032!1.94e-44!165;CL:0000837!1.94e-44!165;CL:0000988!5.81e-43!182;CL:0000766!1.76e-34!76;CL:0000839!7.16e-33!70;CL:0000557!1.64e-30!71;CL:0002194!3.01e-28!63;CL:0000576!3.01e-28!63;CL:0000040!3.01e-28!63;CL:0000559!3.01e-28!63;CL:0002009!9.60e-27!65;CL:0000738!5.62e-25!140;CL:0002057!1.06e-22!42;CL:0000860!3.88e-22!45;CL:0002031!9.76e-22!124;CL:0002087!5.77e-21!119;CL:0000134!1.71e-12!358;CL:0002320!6.24e-12!365;CL:0000219!2.02e-11!390
|ontology_enrichment_celltype=CL:0000763!4.54e-18!108;CL:0000049!4.54e-18!108;CL:0000037!1.16e-14!168;CL:0000566!1.16e-14!168;CL:0000988!8.21e-14!177;CL:0001024!3.85e-12!1;CL:0002032!1.65e-11!161;CL:0000837!1.65e-11!161
|ontology_enrichment_disease=DOID:1240!2.20e-29!39;DOID:2531!8.15e-27!51;DOID:0060083!8.15e-27!51;DOID:8692!5.62e-25!31
|ontology_enrichment_disease=DOID:8692!9.76e-59!31;DOID:1240!2.30e-46!39;DOID:2531!4.54e-35!51;DOID:0060083!4.54e-35!51;DOID:225!1.11e-12!1;DOID:0050686!7.87e-12!137;DOID:74!5.73e-07!2
|ontology_enrichment_uberon=UBERON:0002390!2.82e-37!102;UBERON:0003061!2.82e-37!102;UBERON:0002193!3.67e-35!112;UBERON:0002371!6.59e-27!80;UBERON:0001474!9.44e-27!86;UBERON:0004765!7.73e-23!101;UBERON:0001434!7.73e-23!101;UBERON:0002405!4.66e-21!115;UBERON:0002384!8.81e-12!375;UBERON:0000178!3.02e-08!15;UBERON:0000179!3.02e-08!15;UBERON:0000463!3.02e-08!15;UBERON:0003081!7.31e-08!216;UBERON:0002204!2.13e-07!167
|ontology_enrichment_uberon=
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}}
}}

Revision as of 10:52, 19 October 2012


Full id: C1114_acute_myelodysplastic_biphenotypic_Whole_CD14_granulocyte_Reticulocytes



Phase1 CAGE Peaks

Hg19::chr10:31146746..31146755,-p14@ZNF438
Hg19::chr19:823786..823802,-p@chr19:823786..823802
-
Hg19::chr20:58296274..58296286,+p6@PHACTR3
Hg19::chr22:19230364..19230403,-p@chr22:19230364..19230403
-
Hg19::chr6:135516877..135516900,+p5@MYB
Hg19::chrX:102240328..102240378,+p@chrX:102240328..102240378
+
Hg19::chrX:77908950..77908963,+p@chrX:77908950..77908963
+


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


GO IDGO nameFDR corrected p-value
GO:0016363nuclear matrix0.000280759068628149
GO:0031981nuclear lumen0.0222802878898693
GO:0031974membrane-enclosed lumen0.0222802878898693
GO:0043233organelle lumen0.0222802878898693
GO:0004864protein phosphatase inhibitor activity0.0222802878898693
GO:0019212phosphatase inhibitor activity0.0222802878898693
GO:0044428nuclear part0.0222802878898693
GO:0005634nucleus0.0354264579927823
GO:0019888protein phosphatase regulator activity0.0361200255105227
GO:0019208phosphatase regulator activity0.0361200255105227



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><br>disease_data<br>


Disease
Ontology termp-valuen
myeloid leukemia9.76e-5931
leukemia2.30e-4639
hematologic cancer4.54e-3551
immune system cancer4.54e-3551
syndrome1.11e-121
organ system cancer7.87e-12137
hematopoietic system disease5.73e-072


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


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.