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MCL coexpression mm9:1640: Difference between revisions

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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0.448354805350486,0.530636114757998,0.42134914571647,0.0686377264886741,0.120273978885459,0.662305866932639,0.503178981008659,0.124865908594952,0,0,0.436963985481971,0.292211982742496,0.153628809860867,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.200913802025349,0,0,0,0,0,0,0,0,0,0,0,0.701290098400599,0.591225886078848,0.781138093520243,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.27174718160524,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.100004302423367,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0932921651944173,0,0.0983461768813133,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0681778550615498,0.056886356216389,0.0562185712770556,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0417740847988257,0,0,0.0403878614760544,0.0398944891531444,0.0480053095083702,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0.448354805350486,0.530636114757998,0.42134914571647,0.0686377264886741,0.120273978885459,0.662305866932639,0.503178981008659,0.124865908594952,0,0,0.436963985481971,0.292211982742496,0.153628809860867,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.200913802025349,0,0,0,0,0,0,0,0,0,0,0,0.701290098400599,0.591225886078848,0.781138093520243,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.27174718160524,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.100004302423367,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0932921651944173,0,0.0983461768813133,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0681778550615498,0.056886356216389,0.0562185712770556,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0417740847988257,0,0,0.0403878614760544,0.0398944891531444,0.0480053095083702,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=
|gostat_on_MCL_coexpression=
|ontology_enrichment_celltype=CL:0000791!8.24e-32!9;CL:0000789!8.24e-32!9;CL:0002420!8.24e-32!9;CL:0002419!8.24e-32!9;CL:0000790!8.24e-32!9;CL:0000838!3.21e-29!12;CL:0000624!3.45e-28!8;CL:0000542!7.75e-27!13;CL:0000051!7.75e-27!13;CL:0002031!4.62e-26!25;CL:0000988!6.25e-26!32;CL:0002032!6.25e-26!32;CL:0000037!6.25e-26!32;CL:0000566!6.25e-26!32;CL:0000837!6.25e-26!32;CL:0000084!9.25e-26!11;CL:0000827!9.25e-26!11;CL:0002242!1.80e-21!16;CL:0000893!2.64e-21!6;CL:0002489!2.64e-21!6;CL:0000898!2.64e-21!6;CL:0000809!2.64e-21!6;CL:0000810!2.64e-21!6;CL:0000895!2.64e-21!6;CL:0000808!2.64e-21!6;CL:0000894!2.64e-21!6;CL:0000806!2.64e-21!6;CL:0000807!2.64e-21!6;CL:0000805!2.64e-21!6;CL:0002425!2.64e-21!6;CL:0002436!2.64e-21!6;CL:0002427!2.64e-21!6;CL:0002428!2.64e-21!6;CL:0002429!2.64e-21!6;CL:0002433!2.64e-21!6;CL:0002431!2.64e-21!6;CL:0002432!2.64e-21!6;CL:0000738!4.21e-20!17;CL:0002087!4.21e-20!17;CL:0002320!1.73e-19!46;CL:0000134!1.73e-19!46;CL:0000219!4.20e-16!54;CL:0000034!6.11e-11!97;CL:0000553!1.06e-09!6;CL:0000556!1.06e-09!6;CL:0000723!3.53e-08!91;CL:0000048!3.53e-08!91
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002384!1.73e-19!46;UBERON:0002193!2.61e-13!48;UBERON:0002405!2.61e-13!48;UBERON:0002370!3.52e-13!23;UBERON:0000974!3.52e-13!23;UBERON:0004807!3.52e-13!23;UBERON:0005058!3.52e-13!23;UBERON:0003351!3.52e-13!23;UBERON:0009113!3.52e-13!23;UBERON:0003295!3.52e-13!23;UBERON:0009722!3.52e-13!23;UBERON:0005562!3.52e-13!23;UBERON:0007690!3.52e-13!23;UBERON:0006562!1.47e-12!24;UBERON:0003408!1.47e-12!24;UBERON:0001557!1.47e-12!24;UBERON:0001042!1.47e-12!24;UBERON:0008814!1.47e-12!24;UBERON:0009145!1.47e-12!24;UBERON:0002390!2.17e-12!45;UBERON:0003061!2.17e-12!45;UBERON:0000072!5.63e-11!27;UBERON:0004177!4.21e-10!29;UBERON:0005057!4.21e-10!29;UBERON:0000077!6.54e-10!35;UBERON:0000063!4.42e-08!35;UBERON:0007811!8.24e-08!36
}}
}}

Revision as of 17:12, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr13:30878237..30878249,+p@chr13:30878237..30878249
+
Mm9::chr14:122328651..122328669,-p@chr14:122328651..122328669
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Mm9::chr1:161983227..161983241,-p@chr1:161983227..161983241
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Mm9::chr5:122669837..122669864,+p@chr5:122669837..122669864
+
Mm9::chr7:6107402..6107413,+p@chr7:6107402..6107413
+


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 cell8.24e-329
alpha-beta T cell8.24e-329
immature T cell8.24e-329
mature T cell8.24e-329
immature alpha-beta T cell8.24e-329
lymphoid lineage restricted progenitor cell3.21e-2912
CD4-positive, alpha-beta T cell3.45e-288
lymphocyte7.75e-2713
common lymphoid progenitor7.75e-2713
hematopoietic lineage restricted progenitor cell4.62e-2625
hematopoietic cell6.25e-2632
hematopoietic oligopotent progenitor cell6.25e-2632
hematopoietic stem cell6.25e-2632
angioblastic mesenchymal cell6.25e-2632
hematopoietic multipotent progenitor cell6.25e-2632
T cell9.25e-2611
pro-T cell9.25e-2611
nucleate cell1.80e-2116
thymocyte2.64e-216
double negative thymocyte2.64e-216
naive T cell2.64e-216
double-positive, alpha-beta thymocyte2.64e-216
CD4-positive, alpha-beta thymocyte2.64e-216
naive thymus-derived CD4-positive, alpha-beta T cell2.64e-216
DN4 thymocyte2.64e-216
DN1 thymic pro-T cell2.64e-216
DN2 thymocyte2.64e-216
DN3 thymocyte2.64e-216
immature single positive thymocyte2.64e-216
early T lineage precursor2.64e-216
mature CD4 single-positive thymocyte2.64e-216
resting double-positive thymocyte2.64e-216
double-positive blast2.64e-216
CD69-positive double-positive thymocyte2.64e-216
CD69-positive, CD4-positive single-positive thymocyte2.64e-216
CD4-positive, CD8-intermediate double-positive thymocyte2.64e-216
CD24-positive, CD4 single-positive thymocyte2.64e-216
leukocyte4.21e-2017
nongranular leukocyte4.21e-2017
connective tissue cell1.73e-1946
mesenchymal cell1.73e-1946
motile cell4.20e-1654
stem cell6.11e-1197
megakaryocyte progenitor cell1.06e-096
megakaryocyte1.06e-096
somatic stem cell3.53e-0891
multi fate stem cell3.53e-0891

Uber Anatomy
Ontology termp-valuen
connective tissue1.73e-1946
hemolymphoid system2.61e-1348
immune system2.61e-1348
thymus3.52e-1323
neck3.52e-1323
respiratory system epithelium3.52e-1323
hemolymphoid system gland3.52e-1323
pharyngeal epithelium3.52e-1323
thymic region3.52e-1323
pharyngeal gland3.52e-1323
entire pharyngeal arch endoderm3.52e-1323
thymus primordium3.52e-1323
early pharyngeal endoderm3.52e-1323
pharynx1.47e-1224
gland of gut1.47e-1224
upper respiratory tract1.47e-1224
chordate pharynx1.47e-1224
pharyngeal arch system1.47e-1224
pharyngeal region of foregut1.47e-1224
hematopoietic system2.17e-1245
blood island2.17e-1245
segment of respiratory tract5.63e-1127
hemopoietic organ4.21e-1029
immune organ4.21e-1029
mixed endoderm/mesoderm-derived structure6.54e-1035
organ segment4.42e-0835
craniocervical region8.24e-0836


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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