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MCL coexpression mm9:1022: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0015922;aspartate oxidase activity;0.0173986206403512;70503!GO:0008445;D-aspartate oxidase activity;0.0173986206403512;70503!GO:0003884;D-amino-acid oxidase activity;0.0173986206403512;70503!GO:0006531;aspartate metabolic process;0.0173986206403512;70503!GO:0044444;cytoplasmic part;0.0173986206403512;240667,18604,70772,107227,70503!GO:0006086;acetyl-CoA biosynthetic process from pyruvate;0.0194060622428501;18604!GO:0004740;pyruvate dehydrogenase (acetyl-transferring) kinase activity;0.0194060622428501;18604!GO:0007320;insemination;0.0194060622428501;70503!GO:0018106;peptidyl-histidine phosphorylation;0.0194060622428501;18604!GO:0007620;copulation;0.0194060622428501;70503!GO:0006085;acetyl-CoA biosynthetic process;0.0194060622428501;18604!GO:0018202;peptidyl-histidine modification;0.0194060622428501;18604!GO:0007625;grooming behavior;0.0194060622428501;70503!GO:0004673;protein histidine kinase activity;0.0300167411853002;18604!GO:0007618;mating;0.0345885816586775;70503!GO:0009066;aspartate family amino acid metabolic process;0.0345885816586775;70503!GO:0016775;phosphotransferase activity, nitrogenous group as acceptor;0.0345885816586775;18604!GO:0016641;oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor;0.037323481861197;70503!GO:0016638;oxidoreductase activity, acting on the CH-NH2 group of donors;0.0440581817269506;70503!GO:0006090;pyruvate metabolic process;0.0440581817269506;18604!GO:0000003;reproduction;0.0454201494827825;70772,70503!GO:0019752;carboxylic acid metabolic process;0.046996765005203;18604,70503!GO:0006082;organic acid metabolic process;0.046996765005203;18604,70503!
|gostat_on_MCL_coexpression=GO:0015922;aspartate oxidase activity;0.0173986206403512;70503!GO:0008445;D-aspartate oxidase activity;0.0173986206403512;70503!GO:0003884;D-amino-acid oxidase activity;0.0173986206403512;70503!GO:0006531;aspartate metabolic process;0.0173986206403512;70503!GO:0044444;cytoplasmic part;0.0173986206403512;240667,18604,70772,107227,70503!GO:0006086;acetyl-CoA biosynthetic process from pyruvate;0.0194060622428501;18604!GO:0004740;pyruvate dehydrogenase (acetyl-transferring) kinase activity;0.0194060622428501;18604!GO:0007320;insemination;0.0194060622428501;70503!GO:0018106;peptidyl-histidine phosphorylation;0.0194060622428501;18604!GO:0007620;copulation;0.0194060622428501;70503!GO:0006085;acetyl-CoA biosynthetic process;0.0194060622428501;18604!GO:0018202;peptidyl-histidine modification;0.0194060622428501;18604!GO:0007625;grooming behavior;0.0194060622428501;70503!GO:0004673;protein histidine kinase activity;0.0300167411853002;18604!GO:0007618;mating;0.0345885816586775;70503!GO:0009066;aspartate family amino acid metabolic process;0.0345885816586775;70503!GO:0016775;phosphotransferase activity, nitrogenous group as acceptor;0.0345885816586775;18604!GO:0016641;oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor;0.037323481861197;70503!GO:0016638;oxidoreductase activity, acting on the CH-NH2 group of donors;0.0440581817269506;70503!GO:0006090;pyruvate metabolic process;0.0440581817269506;18604!GO:0000003;reproduction;0.0454201494827825;70772,70503!GO:0019752;carboxylic acid metabolic process;0.046996765005203;18604,70503!GO:0006082;organic acid metabolic process;0.046996765005203;18604,70503!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0003914!2.02e-09!47;UBERON:0000468!3.86e-07!333;UBERON:0007100!4.85e-07!18;UBERON:0000948!4.85e-07!18;UBERON:0005498!4.85e-07!18;UBERON:0004140!4.85e-07!18;UBERON:0009881!4.85e-07!18;UBERON:0004141!4.85e-07!18;UBERON:0003084!4.85e-07!18;UBERON:0007005!4.85e-07!18;UBERON:0004139!4.85e-07!18;UBERON:0004291!4.85e-07!18
}}
}}

Revision as of 16:11, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:40349793..40349859,+p1@Ddo
Mm9::chr11:94901820..94901857,-p7@Pdk2
Mm9::chr17:27154950..27155012,+p2@Ggnbp1
Mm9::chr19:44620299..44620322,-p2@Sec31b
Mm9::chr19:44620326..44620361,-p1@Sec31b
Mm9::chr19:7131357..7131423,+p1@Macrod1
Mm9::chr4:33276385..33276430,-p1@Pm20d2


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:0015922aspartate oxidase activity0.0173986206403512
GO:0008445D-aspartate oxidase activity0.0173986206403512
GO:0003884D-amino-acid oxidase activity0.0173986206403512
GO:0006531aspartate metabolic process0.0173986206403512
GO:0044444cytoplasmic part0.0173986206403512
GO:0006086acetyl-CoA biosynthetic process from pyruvate0.0194060622428501
GO:0004740pyruvate dehydrogenase (acetyl-transferring) kinase activity0.0194060622428501
GO:0007320insemination0.0194060622428501
GO:0018106peptidyl-histidine phosphorylation0.0194060622428501
GO:0007620copulation0.0194060622428501
GO:0006085acetyl-CoA biosynthetic process0.0194060622428501
GO:0018202peptidyl-histidine modification0.0194060622428501
GO:0007625grooming behavior0.0194060622428501
GO:0004673protein histidine kinase activity0.0300167411853002
GO:0007618mating0.0345885816586775
GO:0009066aspartate family amino acid metabolic process0.0345885816586775
GO:0016775phosphotransferase activity, nitrogenous group as acceptor0.0345885816586775
GO:0016641oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor0.037323481861197
GO:0016638oxidoreductase activity, acting on the CH-NH2 group of donors0.0440581817269506
GO:0006090pyruvate metabolic process0.0440581817269506
GO:0000003reproduction0.0454201494827825
GO:0019752carboxylic acid metabolic process0.046996765005203
GO:0006082organic acid metabolic process0.046996765005203



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
epithelial tube2.02e-0947
multi-cellular organism3.86e-07333
primary circulatory organ4.85e-0718
heart4.85e-0718
primitive heart tube4.85e-0718
primary heart field4.85e-0718
anterior lateral plate mesoderm4.85e-0718
heart tube4.85e-0718
heart primordium4.85e-0718
cardiac mesoderm4.85e-0718
cardiogenic plate4.85e-0718
heart rudiment4.85e-0718


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}}}