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MCL coexpression mm9:174: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0006429;leucyl-tRNA aminoacylation;0.0118333470026975;102436!GO:0004823;leucine-tRNA ligase activity;0.0118333470026975;102436!GO:0004727;prenylated protein tyrosine phosphatase activity;0.0315504052129011;19283!GO:0004089;carbonate dehydratase activity;0.0473100474364755;19283!GO:0007185;transmembrane receptor protein tyrosine phosphatase signaling pathway;0.0473100474364755;19283!GO:0043038;amino acid activation;0.0482572857440634;102436!GO:0043039;tRNA aminoacylation;0.0482572857440634;102436!GO:0006418;tRNA aminoacylation for protein translation;0.0482572857440634;102436!GO:0016875;ligase activity, forming carbon-oxygen bonds;0.0482572857440634;102436!GO:0016876;ligase activity, forming aminoacyl-tRNA and related compounds;0.0482572857440634;102436!GO:0016836;hydro-lyase activity;0.0482572857440634;19283!GO:0004812;aminoacyl-tRNA ligase activity;0.0482572857440634;102436!
|gostat_on_MCL_coexpression=GO:0006429;leucyl-tRNA aminoacylation;0.0118333470026975;102436!GO:0004823;leucine-tRNA ligase activity;0.0118333470026975;102436!GO:0004727;prenylated protein tyrosine phosphatase activity;0.0315504052129011;19283!GO:0004089;carbonate dehydratase activity;0.0473100474364755;19283!GO:0007185;transmembrane receptor protein tyrosine phosphatase signaling pathway;0.0473100474364755;19283!GO:0043038;amino acid activation;0.0482572857440634;102436!GO:0043039;tRNA aminoacylation;0.0482572857440634;102436!GO:0006418;tRNA aminoacylation for protein translation;0.0482572857440634;102436!GO:0016875;ligase activity, forming carbon-oxygen bonds;0.0482572857440634;102436!GO:0016876;ligase activity, forming aminoacyl-tRNA and related compounds;0.0482572857440634;102436!GO:0016836;hydro-lyase activity;0.0482572857440634;19283!GO:0004812;aminoacyl-tRNA ligase activity;0.0482572857440634;102436!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001017!4.76e-08!73;UBERON:0001016!2.77e-07!75
}}
}}

Revision as of 17:22, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:104675544..104675572,+p@chr10:104675544..104675572
+
Mm9::chr10:26327900..26327901,+p@chr10:26327900..26327901
+
Mm9::chr11:108873019..108873046,-p@chr11:108873019..108873046
-
Mm9::chr11:108873085..108873096,-p@chr11:108873085..108873096
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Mm9::chr11:108873174..108873185,-p@chr11:108873174..108873185
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Mm9::chr11:108873217..108873254,-p@chr11:108873217..108873254
-
Mm9::chr11:108873302..108873314,-p@chr11:108873302..108873314
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Mm9::chr11:17121426..17121456,+p@chr11:17121426..17121456
+
Mm9::chr11:95942492..95942530,+p@chr11:95942492..95942530
+
Mm9::chr12:100883434..100883465,+p@chr12:100883434..100883465
+
Mm9::chr12:100883758..100883774,+p@chr12:100883758..100883774
+
Mm9::chr12:55236145..55236157,+p@chr12:55236145..55236157
+
Mm9::chr12:81542532..81542533,-p@chr12:81542532..81542533
-
Mm9::chr13:44964977..44964992,-p@chr13:44964977..44964992
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Mm9::chr13:44965056..44965083,-p@chr13:44965056..44965083
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Mm9::chr13:44965087..44965098,-p@chr13:44965087..44965098
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Mm9::chr13:54285345..54285377,-p@chr13:54285345..54285377
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Mm9::chr13:54285541..54285556,-p@chr13:54285541..54285556
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Mm9::chr13:97960521..97960565,-p@chr13:97960521..97960565
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Mm9::chr14:20110662..20110693,+p@chr14:20110662..20110693
+
Mm9::chr14:57312922..57312954,-p@chr14:57312922..57312954
-
Mm9::chr15:78668246..78668247,-p@chr15:78668246..78668247
-
Mm9::chr16:35981679..35981717,+p@chr16:35981679..35981717
+
Mm9::chr16:35981824..35981855,-p@chr16:35981824..35981855
-
Mm9::chr16:57391566..57391605,-p@chr16:57391566..57391605
-
Mm9::chr17:14649861..14649863,+p@chr17:14649861..14649863
+
Mm9::chr17:23013421..23013445,+p@chr17:23013421..23013445
+
Mm9::chr17:71312999..71313007,+p@chr17:71312999..71313007
+
Mm9::chr18:54858791..54858830,-p@chr18:54858791..54858830
-
Mm9::chr18:68851751..68851784,+p@chr18:68851751..68851784
+
Mm9::chr18:85867345..85867368,-p@chr18:85867345..85867368
-
Mm9::chr18:85867422..85867454,-p@chr18:85867422..85867454
-
Mm9::chr18:85867499..85867530,-p@chr18:85867499..85867530
-
Mm9::chr19:22926471..22926512,+p@chr19:22926471..22926512
+
Mm9::chr19:40194237..40194255,+p@chr19:40194237..40194255
+
Mm9::chr19:40194276..40194311,+p@chr19:40194276..40194311
+
Mm9::chr19:51217168..51217185,-p@chr19:51217168..51217185
-
Mm9::chr19:8326763..8326780,-p@chr19:8326763..8326780
-
Mm9::chr1:102076839..102076885,-p@chr1:102076839..102076885
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Mm9::chr1:124253801..124253823,-p@chr1:124253801..124253823
-
Mm9::chr1:192944928..192944957,+p@chr1:192944928..192944957
+
Mm9::chr1:46132866..46132898,-p@chr1:46132866..46132898
-
Mm9::chr2:102669618..102669628,-p@chr2:102669618..102669628
-
Mm9::chr2:124315917..124315919,-p@chr2:124315917..124315919
-
Mm9::chr2:148325722..148325726,+p@chr2:148325722..148325726
+
Mm9::chr2:5300382..5300406,-p@chr2:5300382..5300406
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Mm9::chr2:72850967..72850983,-p1@ENSMUST00000175243
Mm9::chr3:37380275..37380294,+p2@ENSMUST00000121415
Mm9::chr3:37380392..37380415,+p1@ENSMUST00000121415
Mm9::chr3:37380481..37380492,+p5@ENSMUST00000121415
Mm9::chr3:5860668..5860718,+p@chr3:5860668..5860718
+
Mm9::chr4:128485623..128485630,+p@chr4:128485623..128485630
+
Mm9::chr5:143916374..143916383,-p@chr5:143916374..143916383
-
Mm9::chr6:109455149..109455185,-p@chr6:109455149..109455185
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Mm9::chr7:140501436..140501438,+p@chr7:140501436..140501438
+
Mm9::chr9:123371193..123371208,+p@chr9:123371193..123371208
+
Mm9::chr9:3258604..3258629,-p@chr9:3258604..3258629
-
Mm9::chr9:3260872..3260875,-p@chr9:3260872..3260875
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Mm9::chr9:41742134..41742136,-p@chr9:41742134..41742136
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Mm9::chrX:3846730..3846751,+p@chrX:3846730..3846751
+
Mm9::chrX:4545392..4545412,+p@chrX:4545392..4545412
+


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:0006429leucyl-tRNA aminoacylation0.0118333470026975
GO:0004823leucine-tRNA ligase activity0.0118333470026975
GO:0004727prenylated protein tyrosine phosphatase activity0.0315504052129011
GO:0004089carbonate dehydratase activity0.0473100474364755
GO:0007185transmembrane receptor protein tyrosine phosphatase signaling pathway0.0473100474364755
GO:0043038amino acid activation0.0482572857440634
GO:0043039tRNA aminoacylation0.0482572857440634
GO:0006418tRNA aminoacylation for protein translation0.0482572857440634
GO:0016875ligase activity, forming carbon-oxygen bonds0.0482572857440634
GO:0016876ligase activity, forming aminoacyl-tRNA and related compounds0.0482572857440634
GO:0016836hydro-lyase activity0.0482572857440634
GO:0004812aminoacyl-tRNA ligase activity0.0482572857440634



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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
central nervous system4.76e-0873
nervous system2.77e-0775


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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