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Coexpression cluster:C1487: Difference between revisions

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|full_id=C1487_Renal_lung_kidney_ductus_seminal_Skeletal_Urothelial
|full_id=C1487_Renal_lung_kidney_ductus_seminal_Skeletal_Urothelial
|id=C1487
|id=C1487
|ontology_enrichment_celltype=CL:1000507!3.90e-09!12;CL:1000494!3.90e-09!12;CL:1000497!1.07e-08!18;CL:0002518!1.07e-08!18;CL:1000449!1.18e-08!16;CL:0000188!7.77e-08!9;CL:0000035!8.69e-08!20;CL:0002076!6.96e-07!43
|ontology_enrichment_celltype=CL:1000507!1.46e-17!10;CL:1000494!1.46e-17!10;CL:1000497!6.54e-14!17;CL:0002518!6.54e-14!17;CL:1000449!2.67e-13!15;CL:0002681!3.81e-08!12;CL:0002584!3.81e-08!12;CL:0000188!7.29e-08!9;CL:0000035!3.40e-07!20;CL:0000062!5.74e-07!11;CL:0000375!5.74e-07!11;CL:0000335!5.74e-07!11
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001008!6.07e-15!45;UBERON:0006554!2.18e-14!44;UBERON:0003064!3.70e-11!37;UBERON:0000489!7.14e-11!32;UBERON:0000080!1.61e-10!18;UBERON:0002120!1.61e-10!18;UBERON:0004875!1.61e-10!18;UBERON:0005721!1.61e-10!18;UBERON:0005754!1.61e-10!18;UBERON:0007297!1.61e-10!18;UBERON:0003887!1.75e-10!21;UBERON:0004876!2.32e-10!20;UBERON:0002113!5.10e-10!27;UBERON:0003918!5.10e-10!27;UBERON:0005095!5.10e-10!27;UBERON:0007687!5.10e-10!27;UBERON:0006555!1.54e-09!17;UBERON:0005103!1.54e-09!17;UBERON:0000083!1.54e-09!17;UBERON:0009201!1.54e-09!17;UBERON:0004819!1.54e-09!17;UBERON:0006553!1.54e-09!17;UBERON:0003074!1.54e-09!17;UBERON:0003060!1.54e-09!17;UBERON:0009773!3.90e-09!12;UBERON:0001231!3.90e-09!12;UBERON:0004810!3.90e-09!12;UBERON:0004211!1.18e-08!16;UBERON:0001285!1.18e-08!16;UBERON:0007684!1.18e-08!16;UBERON:0003220!1.18e-08!16;UBERON:0004208!1.18e-08!16;UBERON:0000058!3.59e-08!26;UBERON:0000926!5.77e-07!448;UBERON:0004120!5.77e-07!448;UBERON:0006603!5.77e-07!448
|ontology_enrichment_uberon=UBERON:0006554!1.22e-20!47;UBERON:0001008!4.65e-20!48;UBERON:0004810!1.46e-17!10;UBERON:0000489!4.02e-17!31;UBERON:0002113!2.27e-16!26;UBERON:0003918!2.27e-16!26;UBERON:0011143!2.27e-16!26;UBERON:0005095!2.27e-16!26;UBERON:0007687!2.27e-16!26;UBERON:0006555!5.12e-15!16;UBERON:0004819!5.12e-15!16;UBERON:0004211!2.67e-13!15;UBERON:0009773!2.67e-13!15;UBERON:0001231!2.67e-13!15;UBERON:0001285!2.67e-13!15;UBERON:0007684!2.67e-13!15;UBERON:0004208!2.67e-13!15;UBERON:0005177!2.98e-10!101;UBERON:0003103!7.70e-09!68;UBERON:0005172!9.24e-09!54;UBERON:0005173!9.24e-09!54;UBERON:0000475!2.29e-08!264;UBERON:0001225!3.81e-08!12;UBERON:0008987!3.81e-08!12;UBERON:0006947!5.10e-08!3;UBERON:0004054!5.10e-08!3;UBERON:0002100!1.57e-07!199;UBERON:0000365!1.68e-07!5;UBERON:0002417!1.97e-07!60;UBERON:0000916!1.97e-07!60;UBERON:0003064!9.17e-07!28
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}}
}}

Revision as of 11:21, 19 October 2012


Full id: C1487_Renal_lung_kidney_ductus_seminal_Skeletal_Urothelial



Phase1 CAGE Peaks

Hg19::chr21:39628703..39628733,+p10@KCNJ15
Hg19::chr21:39628748..39628769,+p15@KCNJ15
Hg19::chr21:39628780..39628801,+p16@KCNJ15
Hg19::chr21:39628852..39628867,+p12@KCNJ15
Hg19::chr21:39628885..39628905,+p13@KCNJ15
Hg19::chr21:39628906..39628919,+p7@KCNJ15


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
urinary system structure1.22e-2047
renal system4.65e-2048
nephron tubule epithelium1.46e-1710
cavitated compound organ4.02e-1731
kidney2.27e-1626
kidney mesenchyme2.27e-1626
upper urinary tract2.27e-1626
kidney rudiment2.27e-1626
kidney field2.27e-1626
excretory tube5.12e-1516
kidney epithelium5.12e-1516
nephron epithelium2.67e-1315
renal tubule2.67e-1315
nephron tubule2.67e-1315
nephron2.67e-1315
uriniferous tubule2.67e-1315
nephrogenic mesenchyme2.67e-1315
trunk region element2.98e-10101
compound organ7.70e-0968
abdomen element9.24e-0954
abdominal segment element9.24e-0954
organism subdivision2.29e-08264
cortex of kidney3.81e-0812
renal parenchyma3.81e-0812
male genital duct5.10e-083
internal male genitalia5.10e-083
trunk1.57e-07199
urothelium1.68e-075
abdominal segment of trunk1.97e-0760
abdomen1.97e-0760
intermediate mesoderm9.17e-0728


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.