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MCL coexpression mm9:1092: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0007521;muscle cell fate determination;0.00427327014737304;21385!GO:0042693;muscle cell fate commitment;0.00427327014737304;21385!GO:0048738;cardiac muscle development;0.0128198104421191;21385!GO:0007569;cell aging;0.0138881279789624;21385!GO:0030879;mammary gland development;0.0170930805894921;21385!GO:0001709;cell fate determination;0.0170930805894921;21385!GO:0007568;aging;0.0170930805894921;21385!GO:0003007;heart morphogenesis;0.0181613981263354;21385!GO:0042692;muscle cell differentiation;0.0299128910316112;21385!GO:0048732;gland development;0.0316221990905605;21385!GO:0045165;cell fate commitment;0.038847910430664;21385!GO:0014706;striated muscle development;0.0434449131649592;21385!GO:0000122;negative regulation of transcription from RNA polymerase II promoter;0.0454034953158385;21385!GO:0016564;transcription repressor activity;0.0454034953158385;21385!GO:0007517;muscle development;0.0454034953158385;21385!GO:0007507;heart development;0.0454034953158385;21385!GO:0045892;negative regulation of transcription, DNA-dependent;0.0470059716211034;21385!
|gostat_on_MCL_coexpression=GO:0007521;muscle cell fate determination;0.00427327014737304;21385!GO:0042693;muscle cell fate commitment;0.00427327014737304;21385!GO:0048738;cardiac muscle development;0.0128198104421191;21385!GO:0007569;cell aging;0.0138881279789624;21385!GO:0030879;mammary gland development;0.0170930805894921;21385!GO:0001709;cell fate determination;0.0170930805894921;21385!GO:0007568;aging;0.0170930805894921;21385!GO:0003007;heart morphogenesis;0.0181613981263354;21385!GO:0042692;muscle cell differentiation;0.0299128910316112;21385!GO:0048732;gland development;0.0316221990905605;21385!GO:0045165;cell fate commitment;0.038847910430664;21385!GO:0014706;striated muscle development;0.0434449131649592;21385!GO:0000122;negative regulation of transcription from RNA polymerase II promoter;0.0454034953158385;21385!GO:0016564;transcription repressor activity;0.0454034953158385;21385!GO:0007517;muscle development;0.0454034953158385;21385!GO:0007507;heart development;0.0454034953158385;21385!GO:0045892;negative regulation of transcription, DNA-dependent;0.0470059716211034;21385!
}}
}}

Revision as of 12:51, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:85644728..85644768,+p@chr11:85644728..85644768
+
Mm9::chr11:85645796..85645812,-p1@ENSMUST00000136117
p1@uc007krx.1
p1@uc007kry.1
Mm9::chr11:85646263..85646278,+p2@Tbx2
Mm9::chr11:85646303..85646329,+p1@Tbx2
Mm9::chr11:85646341..85646352,+p3@Tbx2
Mm9::chr11:85646427..85646451,+p4@Tbx2
Mm9::chr11:85646469..85646488,+p5@Tbx2


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:0007521muscle cell fate determination0.00427327014737304
GO:0042693muscle cell fate commitment0.00427327014737304
GO:0048738cardiac muscle development0.0128198104421191
GO:0007569cell aging0.0138881279789624
GO:0030879mammary gland development0.0170930805894921
GO:0001709cell fate determination0.0170930805894921
GO:0007568aging0.0170930805894921
GO:0003007heart morphogenesis0.0181613981263354
GO:0042692muscle cell differentiation0.0299128910316112
GO:0048732gland development0.0316221990905605
GO:0045165cell fate commitment0.038847910430664
GO:0014706striated muscle development0.0434449131649592
GO:0000122negative regulation of transcription from RNA polymerase II promoter0.0454034953158385
GO:0016564transcription repressor activity0.0454034953158385
GO:0007517muscle development0.0454034953158385
GO:0007507heart development0.0454034953158385
GO:0045892negative regulation of transcription, DNA-dependent0.0470059716211034



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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