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MCL coexpression mm9:1740: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0.180840494114715,0.107744855247029,0.0913378685245542,0,0.0642873521037868,0.180011747370744,0.31155146000515,0,0,0,0.212433811736393,0.226747351639347,0.153628809860867,0,0.0786677159214676,0,0.0644551523736777,0,0,0,0,0,0,0,0,0,0,0,0,0,0.638314809848069,0.2507456850819,0.311127917657318,0.441647142913664,0.484176860335644,0.534984022513845,0,0,0,0,0,0,0,0,0,0.524909504503017,0.236880264493592,0.125836948423969,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.100004302423367,0,0,0,0,0,0,0,0,0,0,0,0.0866592903778752,0,0,0,0,0,0.0491463288895459,0.204093579732844,0.0519509775191307,0,0,0,0,0,0,0,0,0.0509235292940968,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0994554632344034,0.108620321524749,0,0,0,0,0,0,0,0,0,0,0,0,0.0592603993571966,0,0,0,0,0,0.101901855392646,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0736278867910527,0,0,0,0,0,0,0,0,0,0,0,0.0691813633419548,0,0,0.188620766046218,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.179727725901961,0,0.0737896374598673,0,0.055643654597214,0.0894734883806707,0.0681778550615498,0.056886356216389,0.0562185712770556,0,0,0,0,0,0,0,0,0,0,0.209873913294111,0,0,0,0,0,0,0,0,0,0,0,0.411629065605499,0,0.0424616899933645,0.10031596050676,0.31684229110821,0.529452974228686,0.342808339754772,0.36720785254731,0.547055771425622,0.331042861818472,0.449458548076044,0.336358567251731,0.61053016743986,0.696689599292719,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0.180840494114715,0.107744855247029,0.0913378685245542,0,0.0642873521037868,0.180011747370744,0.31155146000515,0,0,0,0.212433811736393,0.226747351639347,0.153628809860867,0,0.0786677159214676,0,0.0644551523736777,0,0,0,0,0,0,0,0,0,0,0,0,0,0.638314809848069,0.2507456850819,0.311127917657318,0.441647142913664,0.484176860335644,0.534984022513845,0,0,0,0,0,0,0,0,0,0.524909504503017,0.236880264493592,0.125836948423969,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.100004302423367,0,0,0,0,0,0,0,0,0,0,0,0.0866592903778752,0,0,0,0,0,0.0491463288895459,0.204093579732844,0.0519509775191307,0,0,0,0,0,0,0,0,0.0509235292940968,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0994554632344034,0.108620321524749,0,0,0,0,0,0,0,0,0,0,0,0,0.0592603993571966,0,0,0,0,0,0.101901855392646,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0736278867910527,0,0,0,0,0,0,0,0,0,0,0,0.0691813633419548,0,0,0.188620766046218,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.179727725901961,0,0.0737896374598673,0,0.055643654597214,0.0894734883806707,0.0681778550615498,0.056886356216389,0.0562185712770556,0,0,0,0,0,0,0,0,0,0,0.209873913294111,0,0,0,0,0,0,0,0,0,0,0,0.411629065605499,0,0.0424616899933645,0.10031596050676,0.31684229110821,0.529452974228686,0.342808339754772,0.36720785254731,0.547055771425622,0.331042861818472,0.449458548076044,0.336358567251731,0.61053016743986,0.696689599292719,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000988!1.61e-14!32;CL:0002032!1.61e-14!32;CL:0000037!1.61e-14!32;CL:0000566!1.61e-14!32;CL:0000837!1.61e-14!32;CL:0000838!1.28e-12!12;CL:0000542!1.77e-11!13;CL:0000051!1.77e-11!13;CL:0000791!4.76e-11!9;CL:0000789!4.76e-11!9;CL:0002420!4.76e-11!9;CL:0002419!4.76e-11!9;CL:0000790!4.76e-11!9;CL:0000084!5.55e-11!11;CL:0000827!5.55e-11!11;CL:0002031!1.67e-10!25;CL:0000738!3.91e-10!17;CL:0002087!3.91e-10!17;CL:0000624!1.07e-09!8;CL:0002242!6.47e-09!16;CL:0002320!1.21e-08!46;CL:0000134!1.21e-08!46;CL:0000893!7.93e-07!6;CL:0002489!7.93e-07!6;CL:0000898!7.93e-07!6;CL:0000809!7.93e-07!6;CL:0000810!7.93e-07!6;CL:0000895!7.93e-07!6;CL:0000808!7.93e-07!6;CL:0000894!7.93e-07!6;CL:0000806!7.93e-07!6;CL:0000807!7.93e-07!6;CL:0000805!7.93e-07!6;CL:0002425!7.93e-07!6;CL:0002436!7.93e-07!6;CL:0002427!7.93e-07!6;CL:0002428!7.93e-07!6;CL:0002429!7.93e-07!6;CL:0002433!7.93e-07!6;CL:0002431!7.93e-07!6;CL:0002432!7.93e-07!6
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002193!3.55e-26!48;UBERON:0002405!3.55e-26!48;UBERON:0004177!5.32e-25!29;UBERON:0005057!5.32e-25!29;UBERON:0002390!1.62e-24!45;UBERON:0003061!1.62e-24!45;UBERON:0003408!1.10e-23!24;UBERON:0002370!3.40e-22!23;UBERON:0000974!3.40e-22!23;UBERON:0004807!3.40e-22!23;UBERON:0005058!3.40e-22!23;UBERON:0003351!3.40e-22!23;UBERON:0009113!3.40e-22!23;UBERON:0003295!3.40e-22!23;UBERON:0009722!3.40e-22!23;UBERON:0005562!3.40e-22!23;UBERON:0007690!3.40e-22!23;UBERON:0006562!4.69e-21!24;UBERON:0001557!4.69e-21!24;UBERON:0001042!4.69e-21!24;UBERON:0008814!4.69e-21!24;UBERON:0009145!4.69e-21!24;UBERON:0000077!1.20e-19!35;UBERON:0000072!3.79e-18!27;UBERON:0007811!5.29e-14!36;UBERON:0001004!5.97e-14!42;UBERON:0000063!7.36e-13!35;UBERON:0000065!7.40e-13!41;UBERON:0003081!1.03e-11!87;UBERON:0000153!6.92e-11!43;UBERON:0000926!9.69e-09!120;UBERON:0004120!9.69e-09!120;UBERON:0006603!9.69e-09!120;UBERON:0002384!1.21e-08!46;UBERON:0001041!1.32e-07!80;UBERON:0000490!3.25e-07!66
}}
}}

Revision as of 17:22, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr1:135960097..135960108,+p@chr1:135960097..135960108
+
Mm9::chr1:138031733..138031746,-p@chr1:138031733..138031746
-
Mm9::chr4:63047044..63047062,+p@chr4:63047044..63047062
+
Mm9::chr7:121461031..121461042,-p@chr7:121461031..121461042
-
Mm9::chrX:45496807..45496816,-p@chrX:45496807..45496816
-


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
hematopoietic cell1.61e-1432
hematopoietic oligopotent progenitor cell1.61e-1432
hematopoietic stem cell1.61e-1432
angioblastic mesenchymal cell1.61e-1432
hematopoietic multipotent progenitor cell1.61e-1432
lymphoid lineage restricted progenitor cell1.28e-1212
lymphocyte1.77e-1113
common lymphoid progenitor1.77e-1113
mature alpha-beta T cell4.76e-119
alpha-beta T cell4.76e-119
immature T cell4.76e-119
mature T cell4.76e-119
immature alpha-beta T cell4.76e-119
T cell5.55e-1111
pro-T cell5.55e-1111
hematopoietic lineage restricted progenitor cell1.67e-1025
leukocyte3.91e-1017
nongranular leukocyte3.91e-1017
CD4-positive, alpha-beta T cell1.07e-098
nucleate cell6.47e-0916
connective tissue cell1.21e-0846
mesenchymal cell1.21e-0846
thymocyte7.93e-076
double negative thymocyte7.93e-076
naive T cell7.93e-076
double-positive, alpha-beta thymocyte7.93e-076
CD4-positive, alpha-beta thymocyte7.93e-076
naive thymus-derived CD4-positive, alpha-beta T cell7.93e-076
DN4 thymocyte7.93e-076
DN1 thymic pro-T cell7.93e-076
DN2 thymocyte7.93e-076
DN3 thymocyte7.93e-076
immature single positive thymocyte7.93e-076
early T lineage precursor7.93e-076
mature CD4 single-positive thymocyte7.93e-076
resting double-positive thymocyte7.93e-076
double-positive blast7.93e-076
CD69-positive double-positive thymocyte7.93e-076
CD69-positive, CD4-positive single-positive thymocyte7.93e-076
CD4-positive, CD8-intermediate double-positive thymocyte7.93e-076
CD24-positive, CD4 single-positive thymocyte7.93e-076

Uber Anatomy
Ontology termp-valuen
hemolymphoid system3.55e-2648
immune system3.55e-2648
hemopoietic organ5.32e-2529
immune organ5.32e-2529
hematopoietic system1.62e-2445
blood island1.62e-2445
gland of gut1.10e-2324
thymus3.40e-2223
neck3.40e-2223
respiratory system epithelium3.40e-2223
hemolymphoid system gland3.40e-2223
pharyngeal epithelium3.40e-2223
thymic region3.40e-2223
pharyngeal gland3.40e-2223
entire pharyngeal arch endoderm3.40e-2223
thymus primordium3.40e-2223
early pharyngeal endoderm3.40e-2223
pharynx4.69e-2124
upper respiratory tract4.69e-2124
chordate pharynx4.69e-2124
pharyngeal arch system4.69e-2124
pharyngeal region of foregut4.69e-2124
mixed endoderm/mesoderm-derived structure1.20e-1935
segment of respiratory tract3.79e-1827
craniocervical region5.29e-1436
respiratory system5.97e-1442
organ segment7.36e-1335
respiratory tract7.40e-1341
lateral plate mesoderm1.03e-1187
anterior region of body6.92e-1143
mesoderm9.69e-09120
mesoderm-derived structure9.69e-09120
presumptive mesoderm9.69e-09120
connective tissue1.21e-0846
foregut1.32e-0780
unilaminar epithelium3.25e-0766


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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