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MCL coexpression mm9:317: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0043283;biopolymer metabolic process;0.045164440216554;77805,19877,16451,68592,20585,72102,67345,78610,66660,30843,18193,269254!GO:0006259;DNA metabolic process;0.045164440216554;78610,77805,18193,20585,269254!GO:0006281;DNA repair;0.045164440216554;78610,77805,269254!GO:0030331;estrogen receptor binding;0.045164440216554;18193!GO:0046966;thyroid hormone receptor binding;0.045164440216554;18193!GO:0046975;histone lysine N-methyltransferase activity (H3-K36 specific);0.045164440216554;18193!GO:0019992;diacylglycerol binding;0.045164440216554;19877,13139!
|gostat_on_MCL_coexpression=GO:0043283;biopolymer metabolic process;0.045164440216554;77805,19877,16451,68592,20585,72102,67345,78610,66660,30843,18193,269254!GO:0006259;DNA metabolic process;0.045164440216554;78610,77805,18193,20585,269254!GO:0006281;DNA repair;0.045164440216554;78610,77805,269254!GO:0030331;estrogen receptor binding;0.045164440216554;18193!GO:0046966;thyroid hormone receptor binding;0.045164440216554;18193!GO:0046975;histone lysine N-methyltransferase activity (H3-K36 specific);0.045164440216554;18193!GO:0019992;diacylglycerol binding;0.045164440216554;19877,13139!
}}
}}

Revision as of 12:39, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr10:128180889..128180901,-p5@Dgka
Mm9::chr10:128181070..128181141,-p1@Dgka
Mm9::chr10:62706636..62706712,+p1@Herc4
Mm9::chr11:60591033..60591065,+p1@Smcr8
Mm9::chr12:4599798..4599893,+p1@Itsn2
Mm9::chr12:52930268..52930344,-p1@Hectd1
Mm9::chr12:72116953..72117050,+p1@Arid4a
Mm9::chr13:55312285..55312319,+p4@Nsd1
Mm9::chr17:21625946..21626024,+p1@Zfp53
Mm9::chr18:10182126..10182149,-p5@Rock1
Mm9::chr18:10610046..10610114,-p1@Esco1
Mm9::chr2:28980663..28980698,+p1@Setx
Mm9::chr3:19957802..19957857,+p1@Hltf
Mm9::chr4:100937841..100937859,-p2@Jak1
Mm9::chr4:134486861..134486912,+p1@Syf2
Mm9::chr4:142752000..142752037,-p@chr4:142752000..142752037
-
Mm9::chr4:44769481..44769554,+p1@Zcchc7
Mm9::chr6:85911625..85911665,-p1@Dusp11
Mm9::chr6:85911666..85911677,-p4@Dusp11
Mm9::chr7:106289578..106289659,-p1@Uvrag
Mm9::chr7:99818398..99818422,-p1@Pcf11
Mm9::chr8:26212579..26212641,-p2@Plekha2
Mm9::chr9:110434942..110434971,+p3@Setd2
Mm9::chr9:20449170..20449233,-p1@Fbxl12
Mm9::chr9:70390679..70390727,+p1@Sltm


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:0043283biopolymer metabolic process0.045164440216554
GO:0006259DNA metabolic process0.045164440216554
GO:0006281DNA repair0.045164440216554
GO:0030331estrogen receptor binding0.045164440216554
GO:0046966thyroid hormone receptor binding0.045164440216554
GO:0046975histone lysine N-methyltransferase activity (H3-K36 specific)0.045164440216554
GO:0019992diacylglycerol binding0.045164440216554



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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