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MCL coexpression mm9:494: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0636076933539527,0,0,0,0.641066628599924,0.735630545788583,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.100004302423367,0,0,0,0,0,0,0,0,0,0,0,0.0866592903778752,0.171689969376673,0,0,0,0,0.588334799715528,0.531429216089254,0.579274144287178,0,0,0,0,0,0,0,0,0.137740408373976,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.580794183103832,0.307365864513145,0.329734199699445,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0802151268900158,0,0,0.109813392994768,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0737896374598673,0.0749511157581746,0.055643654597214,0,0.482836604134519,0.428040377850264,0.401434957574071,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.147815532899656,0.0424616899933645,0.0530480122014902,0.0715236385554987,0.0787037500278776,0.0492938041367021,0.0598244186619439,0.0417740847988257,0.031895734489288,0.041718751492076,0.0403878614760544,0.0398944891531444,0.0480053095083702,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0352754493378881,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=GO:0042163;interleukin-12 beta subunit binding;0.0270640442666959;16159!GO:0045083;negative regulation of interleukin-12 biosynthetic process;0.0270640442666959;18033!GO:0005143;interleukin-12 receptor binding;0.0270640442666959;16159!GO:0019972;interleukin-12 binding;0.0324724047235415;16159!GO:0043514;interleukin-12 complex;0.0324724047235415;16159!GO:0001740;Barr body;0.0391268735838529;26914!GO:0002376;immune system process;0.0391268735838529;16159,12394,18033!GO:0048266;behavioral response to pain;0.0411605921091782;12394!GO:0035162;embryonic hemopoiesis;0.0411605921091782;12394!GO:0000805;X chromosome;0.0411605921091782;26914!GO:0042090;interleukin-12 biosynthetic process;0.0411605921091782;18033!GO:0045766;positive regulation of angiogenesis;0.0411605921091782;12394!GO:0045075;regulation of interleukin-12 biosynthetic process;0.0411605921091782;18033!GO:0048534;hemopoietic or lymphoid organ development;0.0411605921091782;12394,18033!GO:0002520;immune system development;0.0441554987038445;12394,18033!GO:0007549;dosage compensation;0.045620555825299;26914!GO:0042036;negative regulation of cytokine biosynthetic process;0.0463256521329975;18033!GO:0032615;interleukin-12 production;0.0463256521329975;18033!GO:0048265;response to pain;0.0463256521329975;12394!GO:0016566;specific transcriptional repressor activity;0.0463256521329975;18033!GO:0001739;sex chromatin;0.0463256521329975;26914!GO:0000803;sex chromosome;0.0478983747889359;26914!
|gostat_on_MCL_coexpression=GO:0042163;interleukin-12 beta subunit binding;0.0270640442666959;16159!GO:0045083;negative regulation of interleukin-12 biosynthetic process;0.0270640442666959;18033!GO:0005143;interleukin-12 receptor binding;0.0270640442666959;16159!GO:0019972;interleukin-12 binding;0.0324724047235415;16159!GO:0043514;interleukin-12 complex;0.0324724047235415;16159!GO:0001740;Barr body;0.0391268735838529;26914!GO:0002376;immune system process;0.0391268735838529;16159,12394,18033!GO:0048266;behavioral response to pain;0.0411605921091782;12394!GO:0035162;embryonic hemopoiesis;0.0411605921091782;12394!GO:0000805;X chromosome;0.0411605921091782;26914!GO:0042090;interleukin-12 biosynthetic process;0.0411605921091782;18033!GO:0045766;positive regulation of angiogenesis;0.0411605921091782;12394!GO:0045075;regulation of interleukin-12 biosynthetic process;0.0411605921091782;18033!GO:0048534;hemopoietic or lymphoid organ development;0.0411605921091782;12394,18033!GO:0002520;immune system development;0.0441554987038445;12394,18033!GO:0007549;dosage compensation;0.045620555825299;26914!GO:0042036;negative regulation of cytokine biosynthetic process;0.0463256521329975;18033!GO:0032615;interleukin-12 production;0.0463256521329975;18033!GO:0048265;response to pain;0.0463256521329975;12394!GO:0016566;specific transcriptional repressor activity;0.0463256521329975;18033!GO:0001739;sex chromatin;0.0463256521329975;26914!GO:0000803;sex chromosome;0.0478983747889359;26914!
}}
}}

Revision as of 12:42, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr12:80081699..80081706,-p15@Tmem229b
Mm9::chr13:56237443..56237448,-p15@H2afy
Mm9::chr16:32179862..32179874,+p2@Bex6
Mm9::chr16:32179880..32179921,+p1@Bex6
Mm9::chr16:49857993..49858003,+p@chr16:49857993..49858003
+
Mm9::chr16:92826016..92826027,-p@chr16:92826016..92826027
-
Mm9::chr16:92826036..92826066,-p@chr16:92826036..92826066
-
Mm9::chr3:135271325..135271343,-p15@Nfkb1
Mm9::chr3:137660739..137660743,-p@chr3:137660739..137660743
-
Mm9::chr3:51592897..51592913,+p@chr3:51592897..51592913
+
Mm9::chr3:68495352..68495360,+p3@Il12a
Mm9::chr8:82919099..82919104,-p@chr8:82919099..82919104
-
Mm9::chr8:97544774..97544791,+p@chr8:97544774..97544791
+
Mm9::chr8:97544803..97544843,+p@chr8:97544803..97544843
+
Mm9::chrX:38753893..38753906,+p6@Gria3


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:0042163interleukin-12 beta subunit binding0.0270640442666959
GO:0045083negative regulation of interleukin-12 biosynthetic process0.0270640442666959
GO:0005143interleukin-12 receptor binding0.0270640442666959
GO:0019972interleukin-12 binding0.0324724047235415
GO:0043514interleukin-12 complex0.0324724047235415
GO:0001740Barr body0.0391268735838529
GO:0002376immune system process0.0391268735838529
GO:0048266behavioral response to pain0.0411605921091782
GO:0035162embryonic hemopoiesis0.0411605921091782
GO:0000805X chromosome0.0411605921091782
GO:0042090interleukin-12 biosynthetic process0.0411605921091782
GO:0045766positive regulation of angiogenesis0.0411605921091782
GO:0045075regulation of interleukin-12 biosynthetic process0.0411605921091782
GO:0048534hemopoietic or lymphoid organ development0.0411605921091782
GO:0002520immune system development0.0441554987038445
GO:0007549dosage compensation0.045620555825299
GO:0042036negative regulation of cytokine biosynthetic process0.0463256521329975
GO:0032615interleukin-12 production0.0463256521329975
GO:0048265response to pain0.0463256521329975
GO:0016566specific transcriptional repressor activity0.0463256521329975
GO:0001739sex chromatin0.0463256521329975
GO:0000803sex chromosome0.0478983747889359



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>disease_data<br>

Cell Type
Ontology termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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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