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MCL coexpression mm9:1976: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0006066;alcohol metabolic process;0.000306281834683947;18563,20787,235623!GO:0044255;cellular lipid metabolic process;0.00102675017073312;18563,20787,235623!GO:0006629;lipid metabolic process;0.00102675017073312;18563,20787,235623!GO:0008203;cholesterol metabolic process;0.00102675017073312;20787,235623!GO:0016125;sterol metabolic process;0.00102675017073312;20787,235623!GO:0004736;pyruvate carboxylase activity;0.00250629676560923;18563!GO:0032810;sterol response element binding;0.00250629676560923;20787!GO:0008202;steroid metabolic process;0.00250629676560923;20787,235623!GO:0032787;monocarboxylic acid metabolic process;0.00515569378181183;18563,235623!GO:0009374;biotin binding;0.00755915840589375;18563!GO:0009267;cellular response to starvation;0.00944739489749404;20787!GO:0019217;regulation of fatty acid metabolic process;0.00944739489749404;235623!GO:0016885;ligase activity, forming carbon-carbon bonds;0.00944739489749404;18563!GO:0031669;cellular response to nutrient levels;0.00944739489749404;20787!GO:0015485;cholesterol binding;0.0100020277963888;235623!GO:0042594;response to starvation;0.0100020277963888;20787!GO:0031668;cellular response to extracellular stimulus;0.0100020277963888;20787!GO:0019752;carboxylic acid metabolic process;0.0107367492345269;18563,235623!GO:0006082;organic acid metabolic process;0.0107367492345269;18563,235623!GO:0031667;response to nutrient levels;0.0122775759449278;20787!GO:0032934;sterol binding;0.0123172879608904;235623!GO:0031090;organelle membrane;0.0123172879608904;18563,235623!GO:0009991;response to extracellular stimulus;0.0123172879608904;20787!GO:0033554;cellular response to stress;0.0128414179677663;20787!GO:0006094;gluconeogenesis;0.0128414179677663;18563!GO:0019216;regulation of lipid metabolic process;0.0137986537725932;235623!GO:0051716;cellular response to stimulus;0.0139861729210222;20787!GO:0006090;pyruvate metabolic process;0.0141602239531468;18563!GO:0019319;hexose biosynthetic process;0.0147469997075971;18563!GO:0005783;endoplasmic reticulum;0.0147469997075971;20787,235623!GO:0046165;alcohol biosynthetic process;0.0147469997075971;18563!GO:0046364;monosaccharide biosynthetic process;0.0147469997075971;18563!GO:0044444;cytoplasmic part;0.0163733969640664;18563,20787,235623!GO:0005496;steroid binding;0.0260620613217157;235623!GO:0005789;endoplasmic reticulum membrane;0.0376592756433307;235623!GO:0042175;nuclear envelope-endoplasmic reticulum network;0.0381760376023527;235623!GO:0016051;carbohydrate biosynthetic process;0.0396196000953267;18563!GO:0044432;endoplasmic reticulum part;0.0396196000953267;235623!GO:0006006;glucose metabolic process;0.0467633555420892;18563!GO:0019842;vitamin binding;0.0493329562777339;18563!
|gostat_on_MCL_coexpression=GO:0006066;alcohol metabolic process;0.000306281834683947;18563,20787,235623!GO:0044255;cellular lipid metabolic process;0.00102675017073312;18563,20787,235623!GO:0006629;lipid metabolic process;0.00102675017073312;18563,20787,235623!GO:0008203;cholesterol metabolic process;0.00102675017073312;20787,235623!GO:0016125;sterol metabolic process;0.00102675017073312;20787,235623!GO:0004736;pyruvate carboxylase activity;0.00250629676560923;18563!GO:0032810;sterol response element binding;0.00250629676560923;20787!GO:0008202;steroid metabolic process;0.00250629676560923;20787,235623!GO:0032787;monocarboxylic acid metabolic process;0.00515569378181183;18563,235623!GO:0009374;biotin binding;0.00755915840589375;18563!GO:0009267;cellular response to starvation;0.00944739489749404;20787!GO:0019217;regulation of fatty acid metabolic process;0.00944739489749404;235623!GO:0016885;ligase activity, forming carbon-carbon bonds;0.00944739489749404;18563!GO:0031669;cellular response to nutrient levels;0.00944739489749404;20787!GO:0015485;cholesterol binding;0.0100020277963888;235623!GO:0042594;response to starvation;0.0100020277963888;20787!GO:0031668;cellular response to extracellular stimulus;0.0100020277963888;20787!GO:0019752;carboxylic acid metabolic process;0.0107367492345269;18563,235623!GO:0006082;organic acid metabolic process;0.0107367492345269;18563,235623!GO:0031667;response to nutrient levels;0.0122775759449278;20787!GO:0032934;sterol binding;0.0123172879608904;235623!GO:0031090;organelle membrane;0.0123172879608904;18563,235623!GO:0009991;response to extracellular stimulus;0.0123172879608904;20787!GO:0033554;cellular response to stress;0.0128414179677663;20787!GO:0006094;gluconeogenesis;0.0128414179677663;18563!GO:0019216;regulation of lipid metabolic process;0.0137986537725932;235623!GO:0051716;cellular response to stimulus;0.0139861729210222;20787!GO:0006090;pyruvate metabolic process;0.0141602239531468;18563!GO:0019319;hexose biosynthetic process;0.0147469997075971;18563!GO:0005783;endoplasmic reticulum;0.0147469997075971;20787,235623!GO:0046165;alcohol biosynthetic process;0.0147469997075971;18563!GO:0046364;monosaccharide biosynthetic process;0.0147469997075971;18563!GO:0044444;cytoplasmic part;0.0163733969640664;18563,20787,235623!GO:0005496;steroid binding;0.0260620613217157;235623!GO:0005789;endoplasmic reticulum membrane;0.0376592756433307;235623!GO:0042175;nuclear envelope-endoplasmic reticulum network;0.0381760376023527;235623!GO:0016051;carbohydrate biosynthetic process;0.0396196000953267;18563!GO:0044432;endoplasmic reticulum part;0.0396196000953267;235623!GO:0006006;glucose metabolic process;0.0467633555420892;18563!GO:0019842;vitamin binding;0.0493329562777339;18563!
}}
}}

Revision as of 13:05, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:60023912..60023930,-p1@Srebf1
Mm9::chr19:4510510..4510532,+p1@Pcx
Mm9::chr19:4510536..4510552,+p2@Pcx
Mm9::chr9:110235906..110235939,+p1@Scap


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:0006066alcohol metabolic process0.000306281834683947
GO:0044255cellular lipid metabolic process0.00102675017073312
GO:0006629lipid metabolic process0.00102675017073312
GO:0008203cholesterol metabolic process0.00102675017073312
GO:0016125sterol metabolic process0.00102675017073312
GO:0004736pyruvate carboxylase activity0.00250629676560923
GO:0032810sterol response element binding0.00250629676560923
GO:0008202steroid metabolic process0.00250629676560923
GO:0032787monocarboxylic acid metabolic process0.00515569378181183
GO:0009374biotin binding0.00755915840589375
GO:0009267cellular response to starvation0.00944739489749404
GO:0019217regulation of fatty acid metabolic process0.00944739489749404
GO:0016885ligase activity, forming carbon-carbon bonds0.00944739489749404
GO:0031669cellular response to nutrient levels0.00944739489749404
GO:0015485cholesterol binding0.0100020277963888
GO:0042594response to starvation0.0100020277963888
GO:0031668cellular response to extracellular stimulus0.0100020277963888
GO:0019752carboxylic acid metabolic process0.0107367492345269
GO:0006082organic acid metabolic process0.0107367492345269
GO:0031667response to nutrient levels0.0122775759449278
GO:0032934sterol binding0.0123172879608904
GO:0031090organelle membrane0.0123172879608904
GO:0009991response to extracellular stimulus0.0123172879608904
GO:0033554cellular response to stress0.0128414179677663
GO:0006094gluconeogenesis0.0128414179677663
GO:0019216regulation of lipid metabolic process0.0137986537725932
GO:0051716cellular response to stimulus0.0139861729210222
GO:0006090pyruvate metabolic process0.0141602239531468
GO:0019319hexose biosynthetic process0.0147469997075971
GO:0005783endoplasmic reticulum0.0147469997075971
GO:0046165alcohol biosynthetic process0.0147469997075971
GO:0046364monosaccharide biosynthetic process0.0147469997075971
GO:0044444cytoplasmic part0.0163733969640664
GO:0005496steroid binding0.0260620613217157
GO:0005789endoplasmic reticulum membrane0.0376592756433307
GO:0042175nuclear envelope-endoplasmic reticulum network0.0381760376023527
GO:0016051carbohydrate biosynthetic process0.0396196000953267
GO:0044432endoplasmic reticulum part0.0396196000953267
GO:0006006glucose metabolic process0.0467633555420892
GO:0019842vitamin binding0.0493329562777339



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}}}