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MCL coexpression mm9:1356: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0.26438523863893,0.468475367262837,0.336524299153945,0.456820040387881,0.498498180126065,0.243454641582056,0.14385946390664,0,0,0,0,0.0558041721483835,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.445593382951438,0.546134170286936,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.100004302423367,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0685090053637401,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.059629779596053,0,0,0,0,0,0,0,0.0417740847988257,0.015947867244644,0.041718751492076,0.0588625755917643,0.0398944891531444,0.0480053095083702,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0.26438523863893,0.468475367262837,0.336524299153945,0.456820040387881,0.498498180126065,0.243454641582056,0.14385946390664,0,0,0,0,0.0558041721483835,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.445593382951438,0.546134170286936,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.100004302423367,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0685090053637401,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.059629779596053,0,0,0,0,0,0,0,0.0417740847988257,0.015947867244644,0.041718751492076,0.0588625755917643,0.0398944891531444,0.0480053095083702,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000791!3.40e-43!9;CL:0000789!3.40e-43!9;CL:0002420!3.40e-43!9;CL:0002419!3.40e-43!9;CL:0000790!3.40e-43!9;CL:0000624!2.48e-38!8;CL:0000084!3.86e-35!11;CL:0000827!3.86e-35!11;CL:0000838!4.07e-32!12;CL:0000542!1.47e-29!13;CL:0000051!1.47e-29!13;CL:0000893!3.81e-29!6;CL:0002489!3.81e-29!6;CL:0000898!3.81e-29!6;CL:0000809!3.81e-29!6;CL:0000810!3.81e-29!6;CL:0000895!3.81e-29!6;CL:0000808!3.81e-29!6;CL:0000894!3.81e-29!6;CL:0000806!3.81e-29!6;CL:0000807!3.81e-29!6;CL:0000805!3.81e-29!6;CL:0002425!3.81e-29!6;CL:0002436!3.81e-29!6;CL:0002427!3.81e-29!6;CL:0002428!3.81e-29!6;CL:0002429!3.81e-29!6;CL:0002433!3.81e-29!6;CL:0002431!3.81e-29!6;CL:0002432!3.81e-29!6;CL:0002242!8.54e-24!16;CL:0000738!2.52e-22!17;CL:0002087!2.52e-22!17;CL:0002031!3.78e-18!25;CL:0000988!7.41e-14!32;CL:0002032!7.41e-14!32;CL:0000037!7.41e-14!32;CL:0000566!7.41e-14!32;CL:0000837!7.41e-14!32;CL:0002320!3.52e-09!46;CL:0000134!3.52e-09!46;CL:0000219!1.36e-07!54
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002370!3.11e-32!23;UBERON:0000974!3.11e-32!23;UBERON:0004807!3.11e-32!23;UBERON:0005058!3.11e-32!23;UBERON:0003351!3.11e-32!23;UBERON:0009113!3.11e-32!23;UBERON:0003295!3.11e-32!23;UBERON:0009722!3.11e-32!23;UBERON:0005562!3.11e-32!23;UBERON:0007690!3.11e-32!23;UBERON:0006562!8.19e-31!24;UBERON:0003408!8.19e-31!24;UBERON:0001557!8.19e-31!24;UBERON:0001042!8.19e-31!24;UBERON:0008814!8.19e-31!24;UBERON:0009145!8.19e-31!24;UBERON:0004177!2.33e-29!29;UBERON:0005057!2.33e-29!29;UBERON:0000072!3.52e-27!27;UBERON:0000077!5.65e-24!35;UBERON:0002193!1.73e-22!48;UBERON:0002405!1.73e-22!48;UBERON:0002390!5.13e-21!45;UBERON:0003061!5.13e-21!45;UBERON:0000063!1.58e-20!35;UBERON:0007811!6.67e-20!36;UBERON:0000065!3.10e-17!41;UBERON:0001004!8.90e-17!42;UBERON:0000153!2.43e-16!43;UBERON:0003929!2.46e-12!55;UBERON:0002368!3.88e-11!60;UBERON:0002530!4.02e-10!65;UBERON:0000490!6.15e-10!66;UBERON:0003081!9.39e-10!87;UBERON:0005911!2.04e-09!69;UBERON:0001041!2.88e-09!80;UBERON:0002384!3.52e-09!46;UBERON:0000949!6.16e-09!72;UBERON:0000064!2.63e-08!99
}}
}}

Revision as of 16:45, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr14:122397461..122397492,+p@chr14:122397461..122397492
+
Mm9::chr14:54838649..54838660,+p@chr14:54838649..54838660
+
Mm9::chr14:54838705..54838714,+p@chr14:54838705..54838714
+
Mm9::chr2:11589194..11589197,+p@chr2:11589194..11589197
+
Mm9::chr2:34816921..34816937,+p@chr2:34816921..34816937
+
Mm9::chr4:32438406..32438415,-p@chr4:32438406..32438415
-


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

Relative expression of the co-expression cluster over median <br>Analyst:




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
mature alpha-beta T cell3.40e-439
alpha-beta T cell3.40e-439
immature T cell3.40e-439
mature T cell3.40e-439
immature alpha-beta T cell3.40e-439
CD4-positive, alpha-beta T cell2.48e-388
T cell3.86e-3511
pro-T cell3.86e-3511
lymphoid lineage restricted progenitor cell4.07e-3212
lymphocyte1.47e-2913
common lymphoid progenitor1.47e-2913
thymocyte3.81e-296
double negative thymocyte3.81e-296
naive T cell3.81e-296
double-positive, alpha-beta thymocyte3.81e-296
CD4-positive, alpha-beta thymocyte3.81e-296
naive thymus-derived CD4-positive, alpha-beta T cell3.81e-296
DN4 thymocyte3.81e-296
DN1 thymic pro-T cell3.81e-296
DN2 thymocyte3.81e-296
DN3 thymocyte3.81e-296
immature single positive thymocyte3.81e-296
early T lineage precursor3.81e-296
mature CD4 single-positive thymocyte3.81e-296
resting double-positive thymocyte3.81e-296
double-positive blast3.81e-296
CD69-positive double-positive thymocyte3.81e-296
CD69-positive, CD4-positive single-positive thymocyte3.81e-296
CD4-positive, CD8-intermediate double-positive thymocyte3.81e-296
CD24-positive, CD4 single-positive thymocyte3.81e-296
nucleate cell8.54e-2416
leukocyte2.52e-2217
nongranular leukocyte2.52e-2217
hematopoietic lineage restricted progenitor cell3.78e-1825
hematopoietic cell7.41e-1432
hematopoietic oligopotent progenitor cell7.41e-1432
hematopoietic stem cell7.41e-1432
angioblastic mesenchymal cell7.41e-1432
hematopoietic multipotent progenitor cell7.41e-1432
connective tissue cell3.52e-0946
mesenchymal cell3.52e-0946
motile cell1.36e-0754

Uber Anatomy
Ontology termp-valuen
thymus3.11e-3223
neck3.11e-3223
respiratory system epithelium3.11e-3223
hemolymphoid system gland3.11e-3223
pharyngeal epithelium3.11e-3223
thymic region3.11e-3223
pharyngeal gland3.11e-3223
entire pharyngeal arch endoderm3.11e-3223
thymus primordium3.11e-3223
early pharyngeal endoderm3.11e-3223
pharynx8.19e-3124
gland of gut8.19e-3124
upper respiratory tract8.19e-3124
chordate pharynx8.19e-3124
pharyngeal arch system8.19e-3124
pharyngeal region of foregut8.19e-3124
hemopoietic organ2.33e-2929
immune organ2.33e-2929
segment of respiratory tract3.52e-2727
mixed endoderm/mesoderm-derived structure5.65e-2435
hemolymphoid system1.73e-2248
immune system1.73e-2248
hematopoietic system5.13e-2145
blood island5.13e-2145
organ segment1.58e-2035
craniocervical region6.67e-2036
respiratory tract3.10e-1741
respiratory system8.90e-1742
anterior region of body2.43e-1643
gut epithelium2.46e-1255
endocrine gland3.88e-1160
gland4.02e-1065
unilaminar epithelium6.15e-1066
lateral plate mesoderm9.39e-1087
endo-epithelium2.04e-0969
foregut2.88e-0980
connective tissue3.52e-0946
endocrine system6.16e-0972
organ part2.63e-0899


TFBS overrepresentation<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}}}

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