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MCL coexpression mm9:1311: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0030020;extracellular matrix structural constituent conferring tensile strength;8.72311481393277e-10;12842,12835,12831,107581!GO:0005581;collagen;9.61269049277178e-10;12842,12835,12831,107581!GO:0005201;extracellular matrix structural constituent;5.96172661944039e-09;12842,12835,12831,107581!GO:0044420;extracellular matrix part;2.558454986592e-08;12842,12835,12831,107581!GO:0022610;biological adhesion;1.93364214938847e-07;12842,21827,12835,12831,107581!GO:0007155;cell adhesion;1.93364214938847e-07;12842,21827,12835,12831,107581!GO:0005578;proteinaceous extracellular matrix;1.28211520733708e-06;12842,12835,12831,107581!GO:0006817;phosphate transport;1.99849138100649e-06;12842,12831,107581!GO:0015698;inorganic anion transport;1.64977104979795e-05;12842,12831,107581!GO:0006820;anion transport;2.47825890742026e-05;12842,12831,107581!GO:0044421;extracellular region part;6.02870362699742e-05;12842,21827,12835,12831,107581!GO:0006811;ion transport;0.00145169204086382;12842,12831,107581!GO:0005615;extracellular space;0.00161700268652046;12842,21827,12835,12831!GO:0005588;collagen type V;0.00199532068133874;12831!GO:0005583;fibrillar collagen;0.00248279364980585;12831!GO:0006810;transport;0.0301890670517649;12842,12831,107581!GO:0008201;heparin binding;0.0301890670517649;12831!GO:0051234;establishment of localization;0.0301890670517649;12842,12831,107581!GO:0005604;basement membrane;0.0301890670517649;12831!GO:0005539;glycosaminoglycan binding;0.034185523575404;12831!GO:0030247;polysaccharide binding;0.034782120041712;12831!GO:0001871;pattern binding;0.034782120041712;12831!GO:0051179;localization;0.034782120041712;12842,12831,107581!
|gostat_on_MCL_coexpression=GO:0030020;extracellular matrix structural constituent conferring tensile strength;8.72311481393277e-10;12842,12835,12831,107581!GO:0005581;collagen;9.61269049277178e-10;12842,12835,12831,107581!GO:0005201;extracellular matrix structural constituent;5.96172661944039e-09;12842,12835,12831,107581!GO:0044420;extracellular matrix part;2.558454986592e-08;12842,12835,12831,107581!GO:0022610;biological adhesion;1.93364214938847e-07;12842,21827,12835,12831,107581!GO:0007155;cell adhesion;1.93364214938847e-07;12842,21827,12835,12831,107581!GO:0005578;proteinaceous extracellular matrix;1.28211520733708e-06;12842,12835,12831,107581!GO:0006817;phosphate transport;1.99849138100649e-06;12842,12831,107581!GO:0015698;inorganic anion transport;1.64977104979795e-05;12842,12831,107581!GO:0006820;anion transport;2.47825890742026e-05;12842,12831,107581!GO:0044421;extracellular region part;6.02870362699742e-05;12842,21827,12835,12831,107581!GO:0006811;ion transport;0.00145169204086382;12842,12831,107581!GO:0005615;extracellular space;0.00161700268652046;12842,21827,12835,12831!GO:0005588;collagen type V;0.00199532068133874;12831!GO:0005583;fibrillar collagen;0.00248279364980585;12831!GO:0006810;transport;0.0301890670517649;12842,12831,107581!GO:0008201;heparin binding;0.0301890670517649;12831!GO:0051234;establishment of localization;0.0301890670517649;12842,12831,107581!GO:0005604;basement membrane;0.0301890670517649;12831!GO:0005539;glycosaminoglycan binding;0.034185523575404;12831!GO:0030247;polysaccharide binding;0.034782120041712;12831!GO:0001871;pattern binding;0.034782120041712;12831!GO:0051179;localization;0.034782120041712;12842,12831,107581!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000468!6.99e-07!333
}}
}}

Revision as of 16:41, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:94798896..94798917,+p2@Col1a1
Mm9::chr1:92740493..92740560,-p1@Col6a3
Mm9::chr2:27741525..27741567,+p5@Col5a1
Mm9::chr3:89019114..89019165,+p1@Thbs3
Mm9::chr4:129725100..129725145,+p1@Col16a1
Mm9::chr4:129725158..129725173,+p2@Col16a1


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:0030020extracellular matrix structural constituent conferring tensile strength8.72311481393277e-10
GO:0005581collagen9.61269049277178e-10
GO:0005201extracellular matrix structural constituent5.96172661944039e-09
GO:0044420extracellular matrix part2.558454986592e-08
GO:0022610biological adhesion1.93364214938847e-07
GO:0007155cell adhesion1.93364214938847e-07
GO:0005578proteinaceous extracellular matrix1.28211520733708e-06
GO:0006817phosphate transport1.99849138100649e-06
GO:0015698inorganic anion transport1.64977104979795e-05
GO:0006820anion transport2.47825890742026e-05
GO:0044421extracellular region part6.02870362699742e-05
GO:0006811ion transport0.00145169204086382
GO:0005615extracellular space0.00161700268652046
GO:0005588collagen type V0.00199532068133874
GO:0005583fibrillar collagen0.00248279364980585
GO:0006810transport0.0301890670517649
GO:0008201heparin binding0.0301890670517649
GO:0051234establishment of localization0.0301890670517649
GO:0005604basement membrane0.0301890670517649
GO:0005539glycosaminoglycan binding0.034185523575404
GO:0030247polysaccharide binding0.034782120041712
GO:0001871pattern binding0.034782120041712
GO:0051179localization0.034782120041712



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
multi-cellular organism6.99e-07333


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}}}