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MCL coexpression mm9:3302: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0.761744687378071,0.740776186414115,0.523830361179734,1.00322575644773,0.877447198949423,0,0.0363974770700186,0,0,0,0.0636076933539527,0.0558041721483835,0.153628809860867,0,0.145247326194276,0.362859104398798,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.125836948423969,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.114912675169673,0,0,0,0,0,0,0,0.0570741246689917,0,0,0,0,0,0,0,0,0,0,0,0.360723912934686,0.0601091194109999,0,0,0,0,0,0,0,0.0586534975690397,0,0,0.0866592903778752,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.096497738357694,0,0.15255853577271,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0652575597868509,0,0,0.0546921007390138,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.112756652096095,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0736278867910527,0,0,0,0,0.0672592169170953,0,0,0,0,0,0.0659019793256198,0,0,0,0,0,0,0,0,0,0.0977676536600382,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0663147875126409,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.111087966368681,0,0,0,0,0,0.055643654597214,0,0,0,0,0.291073584836546,0,0,0,0,0,0,0,0,0.0529304404135566,0,0,0,0,0,0,0,0,0.0531569878936061,0,0,0,0.212726073038607,0.383649603812904,0.780521584239005,0.792169786728025,0.522098100325902,0.340858010137763,0.365890259356836,0.36720785254731,0.41754861367346,0.315318476264303,0.256864285081788,0.250337782561121,0.223621276793701,0.130536619167171,0.0887491219977394,0,0,0,0,0,0.0730404042754446,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0476191773904887,0.0766073954291401,0,0,0.128033729919821,0,0,0,0,0,0.0729583017401753,0,0.0553034373508932,0,0,0,0.148982201447044,0,0,0,0,0,0,0.0865703124974023,0
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0.761744687378071,0.740776186414115,0.523830361179734,1.00322575644773,0.877447198949423,0,0.0363974770700186,0,0,0,0.0636076933539527,0.0558041721483835,0.153628809860867,0,0.145247326194276,0.362859104398798,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.125836948423969,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.114912675169673,0,0,0,0,0,0,0,0.0570741246689917,0,0,0,0,0,0,0,0,0,0,0,0.360723912934686,0.0601091194109999,0,0,0,0,0,0,0,0.0586534975690397,0,0,0.0866592903778752,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.096497738357694,0,0.15255853577271,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0652575597868509,0,0,0.0546921007390138,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.112756652096095,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0736278867910527,0,0,0,0,0.0672592169170953,0,0,0,0,0,0.0659019793256198,0,0,0,0,0,0,0,0,0,0.0977676536600382,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0663147875126409,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.111087966368681,0,0,0,0,0,0.055643654597214,0,0,0,0,0.291073584836546,0,0,0,0,0,0,0,0,0.0529304404135566,0,0,0,0,0,0,0,0,0.0531569878936061,0,0,0,0.212726073038607,0.383649603812904,0.780521584239005,0.792169786728025,0.522098100325902,0.340858010137763,0.365890259356836,0.36720785254731,0.41754861367346,0.315318476264303,0.256864285081788,0.250337782561121,0.223621276793701,0.130536619167171,0.0887491219977394,0,0,0,0,0,0.0730404042754446,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0476191773904887,0.0766073954291401,0,0,0.128033729919821,0,0,0,0,0,0.0729583017401753,0,0.0553034373508932,0,0,0,0.148982201447044,0,0,0,0,0,0,0.0865703124974023,0
|gostat_on_MCL_coexpression=
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000084!2.09e-12!11;CL:0000827!2.09e-12!11;CL:0000838!3.39e-11!12;CL:0000542!3.58e-10!13;CL:0000051!3.58e-10!13;CL:0000791!1.68e-09!9;CL:0000789!1.68e-09!9;CL:0002420!1.68e-09!9;CL:0002419!1.68e-09!9;CL:0000790!1.68e-09!9;CL:0000624!3.44e-08!8;CL:0002242!7.02e-08!16;CL:0000893!7.96e-08!6;CL:0002489!7.96e-08!6;CL:0000898!7.96e-08!6;CL:0000809!7.96e-08!6;CL:0000810!7.96e-08!6;CL:0000895!7.96e-08!6;CL:0000808!7.96e-08!6;CL:0000894!7.96e-08!6;CL:0000806!7.96e-08!6;CL:0000807!7.96e-08!6;CL:0000805!7.96e-08!6;CL:0002425!7.96e-08!6;CL:0002436!7.96e-08!6;CL:0002427!7.96e-08!6;CL:0002428!7.96e-08!6;CL:0002429!7.96e-08!6;CL:0002433!7.96e-08!6;CL:0002431!7.96e-08!6;CL:0002432!7.96e-08!6;CL:0002031!1.17e-07!25;CL:0000738!2.68e-07!17;CL:0002087!2.68e-07!17
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0006562!4.44e-27!24;UBERON:0001557!4.44e-27!24;UBERON:0001042!4.44e-27!24;UBERON:0008814!4.44e-27!24;UBERON:0009145!4.44e-27!24;UBERON:0002370!9.65e-26!23;UBERON:0000974!9.65e-26!23;UBERON:0004807!9.65e-26!23;UBERON:0005058!9.65e-26!23;UBERON:0003351!9.65e-26!23;UBERON:0009113!9.65e-26!23;UBERON:0003295!9.65e-26!23;UBERON:0009722!9.65e-26!23;UBERON:0005562!9.65e-26!23;UBERON:0007690!9.65e-26!23;UBERON:0003408!1.98e-24!24;UBERON:0000072!2.13e-23!27;UBERON:0004177!3.48e-21!29;UBERON:0005057!3.48e-21!29;UBERON:0000065!5.42e-18!41;UBERON:0007811!6.28e-18!36;UBERON:0001004!2.09e-17!42;UBERON:0000063!1.08e-16!35;UBERON:0000077!1.53e-16!35;UBERON:0002193!6.06e-16!48;UBERON:0002405!6.06e-16!48;UBERON:0002390!1.00e-15!45;UBERON:0003061!1.00e-15!45;UBERON:0000153!5.11e-14!43;UBERON:0003081!1.33e-09!87;UBERON:0001041!2.24e-09!80;UBERON:0003929!1.30e-08!55;UBERON:0002368!2.59e-08!60;UBERON:0005911!3.80e-08!69;UBERON:0000926!2.45e-07!120;UBERON:0004120!2.45e-07!120;UBERON:0006603!2.45e-07!120;UBERON:0002530!2.95e-07!65
}}
}}

Revision as of 19:51, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr2:11564469..11564490,+p1@Il2ra
Mm9::chr2:11611489..11611507,+p@chr2:11611489..11611507
+
Mm9::chr2:11611628..11611650,+p@chr2:11611628..11611650
+


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
T cell2.09e-1211
pro-T cell2.09e-1211
lymphoid lineage restricted progenitor cell3.39e-1112
lymphocyte3.58e-1013
common lymphoid progenitor3.58e-1013
mature alpha-beta T cell1.68e-099
alpha-beta T cell1.68e-099
immature T cell1.68e-099
mature T cell1.68e-099
immature alpha-beta T cell1.68e-099
CD4-positive, alpha-beta T cell3.44e-088
nucleate cell7.02e-0816
thymocyte7.96e-086
double negative thymocyte7.96e-086
naive T cell7.96e-086
double-positive, alpha-beta thymocyte7.96e-086
CD4-positive, alpha-beta thymocyte7.96e-086
naive thymus-derived CD4-positive, alpha-beta T cell7.96e-086
DN4 thymocyte7.96e-086
DN1 thymic pro-T cell7.96e-086
DN2 thymocyte7.96e-086
DN3 thymocyte7.96e-086
immature single positive thymocyte7.96e-086
early T lineage precursor7.96e-086
mature CD4 single-positive thymocyte7.96e-086
resting double-positive thymocyte7.96e-086
double-positive blast7.96e-086
CD69-positive double-positive thymocyte7.96e-086
CD69-positive, CD4-positive single-positive thymocyte7.96e-086
CD4-positive, CD8-intermediate double-positive thymocyte7.96e-086
CD24-positive, CD4 single-positive thymocyte7.96e-086
hematopoietic lineage restricted progenitor cell1.17e-0725
leukocyte2.68e-0717
nongranular leukocyte2.68e-0717

Uber Anatomy
Ontology termp-valuen
pharynx4.44e-2724
upper respiratory tract4.44e-2724
chordate pharynx4.44e-2724
pharyngeal arch system4.44e-2724
pharyngeal region of foregut4.44e-2724
thymus9.65e-2623
neck9.65e-2623
respiratory system epithelium9.65e-2623
hemolymphoid system gland9.65e-2623
pharyngeal epithelium9.65e-2623
thymic region9.65e-2623
pharyngeal gland9.65e-2623
entire pharyngeal arch endoderm9.65e-2623
thymus primordium9.65e-2623
early pharyngeal endoderm9.65e-2623
gland of gut1.98e-2424
segment of respiratory tract2.13e-2327
hemopoietic organ3.48e-2129
immune organ3.48e-2129
respiratory tract5.42e-1841
craniocervical region6.28e-1836
respiratory system2.09e-1742
organ segment1.08e-1635
mixed endoderm/mesoderm-derived structure1.53e-1635
hemolymphoid system6.06e-1648
immune system6.06e-1648
hematopoietic system1.00e-1545
blood island1.00e-1545
anterior region of body5.11e-1443
lateral plate mesoderm1.33e-0987
foregut2.24e-0980
gut epithelium1.30e-0855
endocrine gland2.59e-0860
endo-epithelium3.80e-0869
mesoderm2.45e-07120
mesoderm-derived structure2.45e-07120
presumptive mesoderm2.45e-07120
gland2.95e-0765


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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