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(Created page with "{{Coexpression_clusters |full_id=C2228_Monocytederived_seminal_leiomyoma_Renal_Wilms_Endothelial_amniotic |id=C2228 }}")
 
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|full_id=C2228_Monocytederived_seminal_leiomyoma_Renal_Wilms_Endothelial_amniotic
|full_id=C2228_Monocytederived_seminal_leiomyoma_Renal_Wilms_Endothelial_amniotic
|id=C2228
|id=C2228
|ontology_enrichment_celltype=CL:0000066!1.17e-21!254;CL:0002078!3.73e-12!44;CL:0002139!1.24e-10!24;CL:0000115!1.55e-10!35;CL:0002321!1.23e-09!248;CL:0000220!1.60e-09!246;CL:0000071!4.49e-09!18;CL:0002546!4.49e-09!18;CL:0000213!1.04e-07!57;CL:0000215!1.04e-07!57;CL:0002076!3.69e-07!43;CL:0000076!5.83e-07!62
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000468!5.95e-19!659;UBERON:0000467!3.66e-17!625;UBERON:0000480!4.41e-17!626;UBERON:0000922!4.59e-17!612;UBERON:0002050!3.18e-15!605;UBERON:0005423!3.18e-15!605;UBERON:0000923!7.59e-15!604;UBERON:0005291!7.59e-15!604;UBERON:0006598!7.59e-15!604;UBERON:0002532!7.59e-15!604;UBERON:0000477!8.26e-12!286;UBERON:0004111!1.03e-11!241;UBERON:0000062!2.58e-11!511;UBERON:0000926!4.16e-11!448;UBERON:0004120!4.16e-11!448;UBERON:0006603!4.16e-11!448;UBERON:0000464!6.26e-11!104;UBERON:0004119!2.26e-10!169;UBERON:0000925!2.26e-10!169;UBERON:0006595!2.26e-10!169;UBERON:0001004!3.69e-10!72;UBERON:0001007!2.32e-09!155;UBERON:0001555!2.32e-09!155;UBERON:0007026!2.32e-09!155;UBERON:0001986!4.49e-09!18;UBERON:0004638!4.49e-09!18;UBERON:0004852!4.49e-09!18;UBERON:0000055!6.75e-09!69;UBERON:0000487!8.14e-09!22;UBERON:0000481!1.35e-08!347;UBERON:0001981!2.07e-08!60;UBERON:0007500!2.07e-08!60;UBERON:0004537!2.07e-08!60;UBERON:0006965!2.07e-08!60;UBERON:0003104!2.84e-08!238;UBERON:0009142!2.84e-08!238;UBERON:0006914!4.38e-08!25;UBERON:0000466!1.04e-07!126;UBERON:0003914!1.77e-07!118;UBERON:0002553!2.62e-07!70
}}
}}

Revision as of 14:21, 21 May 2012


Full id: C2228_Monocytederived_seminal_leiomyoma_Renal_Wilms_Endothelial_amniotic



Phase1 CAGE Peaks

Hg19::chr12:6345371..6345421,+p@chr12:6345371..6345421
+
Hg19::chr12:6346930..6346972,+p@chr12:6346930..6346972
+
Hg19::chr12:6346975..6347034,+p@chr12:6346975..6347034
+
Hg19::chr12:6347064..6347085,+p@chr12:6347064..6347085
+


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
multi-cellular organism5.95e-19659
anatomical system3.66e-17625
anatomical group4.41e-17626
embryo4.59e-17612
embryonic structure3.18e-15605
developing anatomical structure3.18e-15605
germ layer7.59e-15604
embryonic tissue7.59e-15604
presumptive structure7.59e-15604
epiblast (generic)7.59e-15604
anatomical cluster8.26e-12286
anatomical conduit1.03e-11241
organ2.58e-11511
mesoderm4.16e-11448
mesoderm-derived structure4.16e-11448
presumptive mesoderm4.16e-11448
anatomical space6.26e-11104
endoderm-derived structure2.26e-10169
endoderm2.26e-10169
presumptive endoderm2.26e-10169
respiratory system3.69e-1072
digestive system2.32e-09155
digestive tract2.32e-09155
primitive gut2.32e-09155
endothelium4.49e-0918
blood vessel endothelium4.49e-0918
cardiovascular system endothelium4.49e-0918
vessel6.75e-0969
simple squamous epithelium8.14e-0922
multi-tissue structure1.35e-08347
blood vessel2.07e-0860
epithelial tube open at both ends2.07e-0860
blood vasculature2.07e-0860
vascular cord2.07e-0860
mesenchyme2.84e-08238
entire embryonic mesenchyme2.84e-08238
squamous epithelium4.38e-0825
immaterial anatomical entity1.04e-07126
epithelial tube1.77e-07118
anatomical cavity2.62e-0770


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.