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MCL coexpression mm9:1887: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0.68202810436645,0.281903928295643,0.0913378685245542,0.034318863244337,0.0642873521037868,0.53857485942528,0.30513346809278,0,0,0,0,0.0558041721483835,0.0768144049304335,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0628325491627715,0.783727468163968,0.634358518057588,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0447367441903353,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.322240672823314,0.143249948501144,0.416760201697675,0.386932595602202,0.384822022485365,0.356401799953527,0.250482537201495,0.303684733146551,0.368522193920824,0.314134485446744,0.260830528714251,0.223873329656042,0.344816909922768,0.425450238474868,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0.68202810436645,0.281903928295643,0.0913378685245542,0.034318863244337,0.0642873521037868,0.53857485942528,0.30513346809278,0,0,0,0,0.0558041721483835,0.0768144049304335,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0628325491627715,0.783727468163968,0.634358518057588,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0447367441903353,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.322240672823314,0.143249948501144,0.416760201697675,0.386932595602202,0.384822022485365,0.356401799953527,0.250482537201495,0.303684733146551,0.368522193920824,0.314134485446744,0.260830528714251,0.223873329656042,0.344816909922768,0.425450238474868,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000791!2.31e-29!9;CL:0000789!2.31e-29!9;CL:0002420!2.31e-29!9;CL:0002419!2.31e-29!9;CL:0000790!2.31e-29!9;CL:0000838!1.83e-26!12;CL:0000624!6.09e-26!8;CL:0000542!2.70e-24!13;CL:0000051!2.70e-24!13;CL:0000084!9.24e-24!11;CL:0000827!9.24e-24!11;CL:0002242!2.05e-19!16;CL:0000893!4.74e-19!6;CL:0002489!4.74e-19!6;CL:0000898!4.74e-19!6;CL:0000809!4.74e-19!6;CL:0000810!4.74e-19!6;CL:0000895!4.74e-19!6;CL:0000808!4.74e-19!6;CL:0000894!4.74e-19!6;CL:0000806!4.74e-19!6;CL:0000807!4.74e-19!6;CL:0000805!4.74e-19!6;CL:0002425!4.74e-19!6;CL:0002436!4.74e-19!6;CL:0002427!4.74e-19!6;CL:0002428!4.74e-19!6;CL:0002429!4.74e-19!6;CL:0002433!4.74e-19!6;CL:0002431!4.74e-19!6;CL:0002432!4.74e-19!6;CL:0000738!3.61e-18!17;CL:0002087!3.61e-18!17;CL:0002031!6.58e-17!25;CL:0000988!1.03e-12!32;CL:0002032!1.03e-12!32;CL:0000037!1.03e-12!32;CL:0000566!1.03e-12!32;CL:0000837!1.03e-12!32;CL:0002320!3.65e-08!46;CL:0000134!3.65e-08!46
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002370!7.65e-55!23;UBERON:0000974!7.65e-55!23;UBERON:0004807!7.65e-55!23;UBERON:0005058!7.65e-55!23;UBERON:0003351!7.65e-55!23;UBERON:0009113!7.65e-55!23;UBERON:0003295!7.65e-55!23;UBERON:0009722!7.65e-55!23;UBERON:0005562!7.65e-55!23;UBERON:0007690!7.65e-55!23;UBERON:0006562!2.11e-52!24;UBERON:0003408!2.11e-52!24;UBERON:0001557!2.11e-52!24;UBERON:0001042!2.11e-52!24;UBERON:0008814!2.11e-52!24;UBERON:0009145!2.11e-52!24;UBERON:0004177!4.55e-47!29;UBERON:0005057!4.55e-47!29;UBERON:0000072!3.65e-46!27;UBERON:0000077!2.47e-38!35;UBERON:0002390!5.36e-35!45;UBERON:0003061!5.36e-35!45;UBERON:0000063!9.51e-35!35;UBERON:0007811!1.12e-33!36;UBERON:0002193!1.49e-32!48;UBERON:0002405!1.49e-32!48;UBERON:0000065!4.19e-29!41;UBERON:0001004!2.55e-28!42;UBERON:0000153!1.43e-27!43;UBERON:0003929!1.03e-20!55;UBERON:0002368!1.16e-18!60;UBERON:0002530!6.31e-17!65;UBERON:0000490!1.30e-16!66;UBERON:0003081!4.56e-16!87;UBERON:0005911!1.02e-15!69;UBERON:0000949!6.71e-15!72;UBERON:0001041!1.61e-14!80;UBERON:0000064!6.00e-11!99;UBERON:0000926!1.87e-10!120;UBERON:0004120!1.87e-10!120;UBERON:0006603!1.87e-10!120;UBERON:0004921!5.75e-09!114;UBERON:0001007!9.67e-09!116;UBERON:0001555!9.67e-09!116;UBERON:0007026!9.67e-09!116;UBERON:0004119!1.60e-08!118;UBERON:0000925!1.60e-08!118;UBERON:0006595!1.60e-08!118;UBERON:0002384!3.65e-08!46;UBERON:0001048!5.17e-07!134
}}
}}

Revision as of 17:35, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:19317974..19317989,-p@chr10:19317974..19317989
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Mm9::chr7:75409731..75409742,+p@chr7:75409731..75409742
+
Mm9::chr7:75422633..75422641,+p@chr7:75422633..75422641
+
Mm9::chr9:44782428..44782442,-p@chr9:44782428..44782442
-


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 cell2.31e-299
alpha-beta T cell2.31e-299
immature T cell2.31e-299
mature T cell2.31e-299
immature alpha-beta T cell2.31e-299
lymphoid lineage restricted progenitor cell1.83e-2612
CD4-positive, alpha-beta T cell6.09e-268
lymphocyte2.70e-2413
common lymphoid progenitor2.70e-2413
T cell9.24e-2411
pro-T cell9.24e-2411
nucleate cell2.05e-1916
thymocyte4.74e-196
double negative thymocyte4.74e-196
naive T cell4.74e-196
double-positive, alpha-beta thymocyte4.74e-196
CD4-positive, alpha-beta thymocyte4.74e-196
naive thymus-derived CD4-positive, alpha-beta T cell4.74e-196
DN4 thymocyte4.74e-196
DN1 thymic pro-T cell4.74e-196
DN2 thymocyte4.74e-196
DN3 thymocyte4.74e-196
immature single positive thymocyte4.74e-196
early T lineage precursor4.74e-196
mature CD4 single-positive thymocyte4.74e-196
resting double-positive thymocyte4.74e-196
double-positive blast4.74e-196
CD69-positive double-positive thymocyte4.74e-196
CD69-positive, CD4-positive single-positive thymocyte4.74e-196
CD4-positive, CD8-intermediate double-positive thymocyte4.74e-196
CD24-positive, CD4 single-positive thymocyte4.74e-196
leukocyte3.61e-1817
nongranular leukocyte3.61e-1817
hematopoietic lineage restricted progenitor cell6.58e-1725
hematopoietic cell1.03e-1232
hematopoietic oligopotent progenitor cell1.03e-1232
hematopoietic stem cell1.03e-1232
angioblastic mesenchymal cell1.03e-1232
hematopoietic multipotent progenitor cell1.03e-1232
connective tissue cell3.65e-0846
mesenchymal cell3.65e-0846

Uber Anatomy
Ontology termp-valuen
thymus7.65e-5523
neck7.65e-5523
respiratory system epithelium7.65e-5523
hemolymphoid system gland7.65e-5523
pharyngeal epithelium7.65e-5523
thymic region7.65e-5523
pharyngeal gland7.65e-5523
entire pharyngeal arch endoderm7.65e-5523
thymus primordium7.65e-5523
early pharyngeal endoderm7.65e-5523
pharynx2.11e-5224
gland of gut2.11e-5224
upper respiratory tract2.11e-5224
chordate pharynx2.11e-5224
pharyngeal arch system2.11e-5224
pharyngeal region of foregut2.11e-5224
hemopoietic organ4.55e-4729
immune organ4.55e-4729
segment of respiratory tract3.65e-4627
mixed endoderm/mesoderm-derived structure2.47e-3835
hematopoietic system5.36e-3545
blood island5.36e-3545
organ segment9.51e-3535
craniocervical region1.12e-3336
hemolymphoid system1.49e-3248
immune system1.49e-3248
respiratory tract4.19e-2941
respiratory system2.55e-2842
anterior region of body1.43e-2743
gut epithelium1.03e-2055
endocrine gland1.16e-1860
gland6.31e-1765
unilaminar epithelium1.30e-1666
lateral plate mesoderm4.56e-1687
endo-epithelium1.02e-1569
endocrine system6.71e-1572
foregut1.61e-1480
organ part6.00e-1199
mesoderm1.87e-10120
mesoderm-derived structure1.87e-10120
presumptive mesoderm1.87e-10120
subdivision of digestive tract5.75e-09114
digestive system9.67e-09116
digestive tract9.67e-09116
primitive gut9.67e-09116
endoderm-derived structure1.60e-08118
endoderm1.60e-08118
presumptive endoderm1.60e-08118
connective tissue3.65e-0846
primordium5.17e-07134


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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