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MCL coexpression mm9:436: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0016021;integral to membrane;0.04809804862303;17000,66220,28064,68137,21937,65107,74140,20598,68090,226548!GO:0031224;intrinsic to membrane;0.04809804862303;17000,66220,28064,68137,21937,65107,74140,20598,68090,226548!GO:0005046;KDEL sequence binding;0.04809804862303;68137!GO:0044425;membrane part;0.04809804862303;17000,66220,28064,68137,21937,65107,74140,20598,68090,226548!GO:0046923;ER retention sequence binding;0.04809804862303;68137!GO:0006621;protein retention in ER;0.04809804862303;68137!GO:0016192;vesicle-mediated transport;0.04809804862303;68090,68137,65107!GO:0016020;membrane;0.04809804862303;17000,66220,18220,28064,68137,21937,65107,74140,20598,68090,226548!GO:0043120;tumor necrosis factor binding;0.04809804862303;21937!GO:0005031;tumor necrosis factor receptor activity;0.04809804862303;21937!
|gostat_on_MCL_coexpression=GO:0016021;integral to membrane;0.04809804862303;17000,66220,28064,68137,21937,65107,74140,20598,68090,226548!GO:0031224;intrinsic to membrane;0.04809804862303;17000,66220,28064,68137,21937,65107,74140,20598,68090,226548!GO:0005046;KDEL sequence binding;0.04809804862303;68137!GO:0044425;membrane part;0.04809804862303;17000,66220,28064,68137,21937,65107,74140,20598,68090,226548!GO:0046923;ER retention sequence binding;0.04809804862303;68137!GO:0006621;protein retention in ER;0.04809804862303;68137!GO:0016192;vesicle-mediated transport;0.04809804862303;68090,68137,65107!GO:0016020;membrane;0.04809804862303;17000,66220,18220,28064,68137,21937,65107,74140,20598,68090,226548!GO:0043120;tumor necrosis factor binding;0.04809804862303;21937!GO:0005031;tumor necrosis factor receptor activity;0.04809804862303;21937!
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Revision as of 12:41, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:41210141..41210174,-p1@Smpd2
Mm9::chr14:55082978..55083059,+p1@Lrp10
Mm9::chr14:56262143..56262219,-p1@Tm9sf1
Mm9::chr17:46385018..46385088,+p1@Yipf3
Mm9::chr17:56429922..56429952,-p1@Plin3
Mm9::chr19:4148684..4148697,+p2@Coro1b
Mm9::chr19:5088534..5088575,+p1@Yif1a
Mm9::chr19:5088580..5088591,+p2@Yif1a
Mm9::chr2:29949162..29949199,-p3@Zdhhc12
Mm9::chr3:95697876..95697897,+p1@Aph1a
Mm9::chr6:124758916..124758951,+p1@Spsb2
Mm9::chr6:125263843..125263854,-p3@Ltbr
Mm9::chr6:125263862..125263896,-p1@Ltbr
Mm9::chr6:125299717..125299793,+p1@Tnfrsf1a
Mm9::chr7:52765736..52765769,-p1@Nucb1
Mm9::chr7:53128171..53128227,+p1@Kdelr1
Mm9::chr7:53128232..53128252,+p2@Kdelr1


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:0016021integral to membrane0.04809804862303
GO:0031224intrinsic to membrane0.04809804862303
GO:0005046KDEL sequence binding0.04809804862303
GO:0044425membrane part0.04809804862303
GO:0046923ER retention sequence binding0.04809804862303
GO:0006621protein retention in ER0.04809804862303
GO:0016192vesicle-mediated transport0.04809804862303
GO:0016020membrane0.04809804862303
GO:0043120tumor necrosis factor binding0.04809804862303
GO:0005031tumor necrosis factor receptor activity0.04809804862303



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)

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