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MCL coexpression mm9:712: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0045083;negative regulation of interleukin-12 biosynthetic process;0.0449241220621268;18033!
|gostat_on_MCL_coexpression=GO:0045083;negative regulation of interleukin-12 biosynthetic process;0.0449241220621268;18033!
|ontology_enrichment_celltype=CL:0000988!2.08e-07!32;CL:0002032!2.08e-07!32;CL:0000037!2.08e-07!32;CL:0000566!2.08e-07!32;CL:0000837!2.08e-07!32;CL:0000838!7.44e-07!12
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0003081!3.13e-14!87;UBERON:0002390!3.22e-12!45;UBERON:0003061!3.22e-12!45;UBERON:0002193!3.51e-12!48;UBERON:0002405!3.51e-12!48;UBERON:0000926!1.50e-10!120;UBERON:0004120!1.50e-10!120;UBERON:0006603!1.50e-10!120;UBERON:0001041!1.91e-10!80;UBERON:0001004!1.58e-09!42;UBERON:0000065!2.42e-09!41;UBERON:0000077!1.84e-08!35;UBERON:0004177!3.60e-08!29;UBERON:0005057!3.60e-08!29;UBERON:0000475!1.47e-07!150;UBERON:0002204!2.13e-07!32
}}
}}

Revision as of 21:08, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:6420875..6420894,-p2@Myo1g
Mm9::chr18:4352942..4352960,-p1@Map3k8
Mm9::chr1:161974505..161974583,+p1@4930523C07Rik
Mm9::chr1:161974784..161974832,+p2@4930523C07Rik
Mm9::chr2:79094846..79094877,-p@chr2:79094846..79094877
-
Mm9::chr3:135354289..135354334,-p3@Nfkb1
Mm9::chr7:117912129..117912148,+p@chr7:117912129..117912148
+
Mm9::chr8:86265072..86265089,-p1@Cd97
Mm9::chrX:93291421..93291455,+p1@Msn
Mm9::chrX:93291456..93291467,+p4@Msn


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


GO IDGO nameFDR corrected p-value
GO:0045083negative regulation of interleukin-12 biosynthetic process0.0449241220621268



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>


Uber Anatomy
Ontology termp-valuen
lateral plate mesoderm3.13e-1487
hematopoietic system3.22e-1245
blood island3.22e-1245
hemolymphoid system3.51e-1248
immune system3.51e-1248
mesoderm1.50e-10120
mesoderm-derived structure1.50e-10120
presumptive mesoderm1.50e-10120
foregut1.91e-1080
respiratory system1.58e-0942
respiratory tract2.42e-0941
mixed endoderm/mesoderm-derived structure1.84e-0835
hemopoietic organ3.60e-0829
immune organ3.60e-0829
organism subdivision1.47e-07150
musculoskeletal system2.13e-0732


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)

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