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MCL coexpression mm9:878: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0.255452033203475,0.065002016191076,0.221947893822551,0.474545704103412,0.471514994570017,0.223110820673195,0.670772619004246,0.59189544625387,0.857279307871169,0.820425308036525,0.908309977122622,0.728048755807444,0.756014422271463,0.651777796085717,0,0.720323114459876,0.911694818462073,0.654959171886873,0.7468536150561,0.748527343733595,0,0,0.94469926280088,0.631882984969235,0.65843113657743,0.2645983963912,0.155567395918081,0.269952836963617,0.544407155132256,0.177265236423641,0.321590636619315,0.572660793269736,0,0,0.293086190057046,0.300466757177931,0.0806875710728457,0.075919512117871,0.329719243347044,0.091424613524979,0.441647142913664,0.429104149209262,0.281098971197596,0,0,0,0,0,0,0,0,0,0.914589173198647,0.946932654425158,0.947357486378366,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.688361898921099,0.509086868372733,0.712003146028013,0.639243382371494,0,0,0,0,0,0.034172782309542,0.511324265408794,0.807168834291913,0.246010516510563,0.828932918319508,0.66752122443244,1.18245271753561,0.784373120867564,0.865340706471885,0.848077447032495,0,0,0,0.0613961096489926,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.291114024213495,0.502543502074069,0.328076468853684,0,0,0.0514050548005424,0,0,0,0,0,0,0,0,0.0531247310291112,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.436651175857108,0.508530750134945,0,0,0.0875701595484165,0,0,0,0,0,0,0.0239809638088447,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0412915344116851,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0114726486541832,0,0,0,0,0.05268038312984,0,0,0,0,0,0,0,0.0753613107413788,0,0,0,0,0,0,0,0,0,0,0,0,0.872145067056024,0.745363539086934,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0407493349282708,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0330027737817202,0,0,0,0,0,0,0.027821827298607,0,0.267146409463255,0.310555455666037,0.26101810026711,0,0,0,0.00236356296788431,0,0,0,0,0,0.00645689049860515,0,0,0,0,0,0,0.0338991055318041,0,0.000267070622348986,0.0216534965544966,0,0,0,0,0,0,0,0,0,0,0,0.00409549081017577,0,0.0201939307380272,0,0,0,0.811437914187353,0.766546193045516,0.806304702841468,0,0.00236537792693123,0,0,0,0,0,0,0.420154283585504,0.0259633538483016,0,0,0,0,0,0,0,0,0,0,0.0513676113575023,0,0,0,0,0,0,0,0,0.0121269368029194,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=GO:0008073;ornithine decarboxylase inhibitor activity;0.016159955885354;18245!GO:0042979;ornithine decarboxylase regulator activity;0.016159955885354;18245!GO:0006595;polyamine metabolic process;0.02584813721866;18245!GO:0000184;mRNA catabolic process, nonsense-mediated decay;0.02584813721866;60365!GO:0006402;mRNA catabolic process;0.0273101551622031;60365!GO:0003729;mRNA binding;0.0273101551622031;60365!GO:0006401;RNA catabolic process;0.0273101551622031;60365!GO:0051028;mRNA transport;0.0273101551622031;60365!GO:0050658;RNA transport;0.0273101551622031;60365!GO:0051236;establishment of RNA localization;0.0273101551622031;60365!GO:0050657;nucleic acid transport;0.0273101551622031;60365!GO:0006403;RNA localization;0.0273101551622031;60365!GO:0015931;nucleobase, nucleoside, nucleotide and nucleic acid transport;0.0273101551622031;60365!GO:0006576;biogenic amine metabolic process;0.0331823158039291;18245!GO:0006575;amino acid derivative metabolic process;0.0374068710784698;18245!
|gostat_on_MCL_coexpression=GO:0008073;ornithine decarboxylase inhibitor activity;0.016159955885354;18245!GO:0042979;ornithine decarboxylase regulator activity;0.016159955885354;18245!GO:0006595;polyamine metabolic process;0.02584813721866;18245!GO:0000184;mRNA catabolic process, nonsense-mediated decay;0.02584813721866;60365!GO:0006402;mRNA catabolic process;0.0273101551622031;60365!GO:0003729;mRNA binding;0.0273101551622031;60365!GO:0006401;RNA catabolic process;0.0273101551622031;60365!GO:0051028;mRNA transport;0.0273101551622031;60365!GO:0050658;RNA transport;0.0273101551622031;60365!GO:0051236;establishment of RNA localization;0.0273101551622031;60365!GO:0050657;nucleic acid transport;0.0273101551622031;60365!GO:0006403;RNA localization;0.0273101551622031;60365!GO:0015931;nucleobase, nucleoside, nucleotide and nucleic acid transport;0.0273101551622031;60365!GO:0006576;biogenic amine metabolic process;0.0331823158039291;18245!GO:0006575;amino acid derivative metabolic process;0.0374068710784698;18245!
}}
}}

Revision as of 12:48, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:80289414..80289438,+p1@Oaz1
Mm9::chr17:80333927..80333940,-p@chr17:80333927..80333940
-
Mm9::chr2:121854322..121854334,+p2@Gm9781
Mm9::chr2:157727184..157727213,+p1@ENSMUST00000121302
Mm9::chr2:170110460..170110480,+p1@ENSMUST00000118388
Mm9::chr3:95231497..95231510,+p1@Gm4349
Mm9::chr3:96433842..96433878,+p1@Rbm8a
Mm9::chr7:144562355..144562367,+p@chr7:144562355..144562367
+


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:0008073ornithine decarboxylase inhibitor activity0.016159955885354
GO:0042979ornithine decarboxylase regulator activity0.016159955885354
GO:0006595polyamine metabolic process0.02584813721866
GO:0000184mRNA catabolic process, nonsense-mediated decay0.02584813721866
GO:0006402mRNA catabolic process0.0273101551622031
GO:0003729mRNA binding0.0273101551622031
GO:0006401RNA catabolic process0.0273101551622031
GO:0051028mRNA transport0.0273101551622031
GO:0050658RNA transport0.0273101551622031
GO:0051236establishment of RNA localization0.0273101551622031
GO:0050657nucleic acid transport0.0273101551622031
GO:0006403RNA localization0.0273101551622031
GO:0015931nucleobase, nucleoside, nucleotide and nucleic acid transport0.0273101551622031
GO:0006576biogenic amine metabolic process0.0331823158039291
GO:0006575amino acid derivative metabolic process0.0374068710784698



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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