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MCL coexpression mm9:394: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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}}
}}

Revision as of 12:41, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:79579860..79579871,-p@chr10:79579860..79579871
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Mm9::chr11:115628094..115628110,+p5@2310067B10Rik
Mm9::chr11:6192037..6192053,+p11@Ogdh
Mm9::chr11:69760911..69760934,-p@chr11:69760911..69760934
-
Mm9::chr11:95686473..95686493,+p@chr11:95686473..95686493
+
Mm9::chr12:37833337..37833344,-p@chr12:37833337..37833344
-
Mm9::chr15:101091097..101091115,+p@chr15:101091097..101091115
+
Mm9::chr15:89256249..89256282,-p1@Cpt1b
Mm9::chr16:43364103..43364130,+p30@Zbtb20
Mm9::chr19:5848495..5848522,+p1@ENSMUST00000135347
p1@uc012bhf.1
Mm9::chr1:182123606..182123623,-p2@Adck3
Mm9::chr2:26465282..26465293,+p@chr2:26465282..26465293
+
Mm9::chr5:114596684..114596724,+p1@Acacb
Mm9::chr6:5446296..5446316,-p1@Pdk4
Mm9::chr6:86466170..86466203,-p2@uc009csb.1
Mm9::chr7:137696485..137696499,+p@chr7:137696485..137696499
+
Mm9::chr7:146037793..146037814,-p3@Mapk1ip1
Mm9::chr7:148086300..148086318,-p1@Cox8b
Mm9::chr7:53152416..53152459,+p1@Tmem143


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:0050164oxoglutarate dehydrogenase (NADP+) activity0.0203257535509281
GO:0005739mitochondrion0.0203257535509281
GO:0006006glucose metabolic process0.0203257535509281
GO:0009343biotin carboxylase complex0.0203257535509281
GO:0004591oxoglutarate dehydrogenase (succinyl-transferring) activity0.0203257535509281
GO:0015909long-chain fatty acid transport0.0203257535509281
GO:0009317acetyl-CoA carboxylase complex0.0203257535509281
GO:0004075biotin carboxylase activity0.0203257535509281
GO:0006086acetyl-CoA biosynthetic process from pyruvate0.0203257535509281
GO:0003989acetyl-CoA carboxylase activity0.0203257535509281
GO:0030976thiamin pyrophosphate binding0.0203257535509281
GO:0019318hexose metabolic process0.0203257535509281
GO:0005996monosaccharide metabolic process0.0203257535509281
GO:0016416O-palmitoyltransferase activity0.0203257535509281
GO:0004095carnitine O-palmitoyltransferase activity0.0203257535509281
GO:0004740pyruvate dehydrogenase (acetyl-transferring) kinase activity0.0203257535509281
GO:0015908fatty acid transport0.0212001878857225
GO:0009401phosphoenolpyruvate-dependent sugar phosphotransferase system0.0212001878857225
GO:0018106peptidyl-histidine phosphorylation0.0212001878857225
GO:0006085acetyl-CoA biosynthetic process0.0212001878857225
GO:0016421CoA carboxylase activity0.0212001878857225
GO:0018202peptidyl-histidine modification0.0212001878857225
GO:0016406carnitine O-acyltransferase activity0.0212001878857225
GO:0016624oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor0.0227498824205088
GO:0016885ligase activity, forming carbon-carbon bonds0.0227498824205088
GO:0004712protein serine/threonine/tyrosine kinase activity0.0249943931706218
GO:0032787monocarboxylic acid metabolic process0.0282512687771836
GO:0004673protein histidine kinase activity0.0289986381866018
GO:0031966mitochondrial membrane0.0341836849493751
GO:0044262cellular carbohydrate metabolic process0.0341836849493751
GO:0006066alcohol metabolic process0.0346510387827957
GO:0016775phosphotransferase activity, nitrogenous group as acceptor0.0354922136400253
GO:0005740mitochondrial envelope0.0357826276418746
GO:0016409palmitoyltransferase activity0.0357826276418746
GO:0044444cytoplasmic part0.0405003810754452
GO:0005741mitochondrial outer membrane0.0405003810754452
GO:0044429mitochondrial part0.0405003810754452
GO:0004129cytochrome-c oxidase activity0.0405003810754452
GO:0006090pyruvate metabolic process0.0405003810754452
GO:0016676oxidoreductase activity, acting on heme group of donors, oxygen as acceptor0.0405003810754452
GO:0015002heme-copper terminal oxidase activity0.0405003810754452
GO:0016675oxidoreductase activity, acting on heme group of donors0.0405003810754452
GO:0031968organelle outer membrane0.0414331748193682
GO:0005975carbohydrate metabolic process0.0445371017946409
GO:0031975envelope0.0494077548759043
GO:0031967organelle envelope0.0494077548759043
GO:0016620oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor0.0498917110559975



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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