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MCL coexpression mm9:1392: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|gostat_on_MCL_coexpression=GO:0048702;embryonic neurocranium morphogenesis;0.0153391036659962;15531!GO:0051923;sulfation;0.0153391036659962;15531!GO:0006477;protein amino acid sulfation;0.0153391036659962;15531!GO:0048703;embryonic viscerocranium morphogenesis;0.0184049074230457;15531!GO:0015016;[heparan sulfate]-glucosamine N-sulfotransferase activity;0.0184049074230457;15531!GO:0048701;embryonic cranial skeleton morphogenesis;0.0230036132428184;15531!GO:0006476;protein amino acid deacetylation;0.026286962732604;15531!GO:0048704;embryonic skeletal morphogenesis;0.0272973368109995;15531!GO:0030901;midbrain development;0.0272973368109995;15531!GO:0008543;fibroblast growth factor receptor signaling pathway;0.0272973368109995;15531!GO:0048706;embryonic skeletal development;0.0272973368109995;15531!GO:0005794;Golgi apparatus;0.0272973368109995;15531,11778!GO:0006022;aminoglycan metabolic process;0.0272973368109995;15531!GO:0030203;glycosaminoglycan metabolic process;0.0272973368109995;15531!GO:0007585;respiratory gaseous exchange;0.0272973368109995;15531!GO:0000271;polysaccharide biosynthetic process;0.0272973368109995;15531!GO:0048705;skeletal morphogenesis;0.0290285459467753;15531!GO:0030119;AP-type membrane coat adaptor complex;0.0290285459467753;11778!GO:0030131;clathrin adaptor complex;0.0290285459467753;11778!GO:0007224;smoothened signaling pathway;0.0321662516056839;15531!GO:0005802;trans-Golgi network;0.0350032099612206;11778!GO:0030118;clathrin coat;0.0354965224870329;11778!GO:0008146;sulfotransferase activity;0.0439153450651711;15531!GO:0016782;transferase activity, transferring sulfur-containing groups;0.0458913605078615;15531!GO:0030117;membrane coat;0.0458913605078615;11778!GO:0048475;coated membrane;0.0458913605078615;11778!
|gostat_on_MCL_coexpression=GO:0048702;embryonic neurocranium morphogenesis;0.0153391036659962;15531!GO:0051923;sulfation;0.0153391036659962;15531!GO:0006477;protein amino acid sulfation;0.0153391036659962;15531!GO:0048703;embryonic viscerocranium morphogenesis;0.0184049074230457;15531!GO:0015016;[heparan sulfate]-glucosamine N-sulfotransferase activity;0.0184049074230457;15531!GO:0048701;embryonic cranial skeleton morphogenesis;0.0230036132428184;15531!GO:0006476;protein amino acid deacetylation;0.026286962732604;15531!GO:0048704;embryonic skeletal morphogenesis;0.0272973368109995;15531!GO:0030901;midbrain development;0.0272973368109995;15531!GO:0008543;fibroblast growth factor receptor signaling pathway;0.0272973368109995;15531!GO:0048706;embryonic skeletal development;0.0272973368109995;15531!GO:0005794;Golgi apparatus;0.0272973368109995;15531,11778!GO:0006022;aminoglycan metabolic process;0.0272973368109995;15531!GO:0030203;glycosaminoglycan metabolic process;0.0272973368109995;15531!GO:0007585;respiratory gaseous exchange;0.0272973368109995;15531!GO:0000271;polysaccharide biosynthetic process;0.0272973368109995;15531!GO:0048705;skeletal morphogenesis;0.0290285459467753;15531!GO:0030119;AP-type membrane coat adaptor complex;0.0290285459467753;11778!GO:0030131;clathrin adaptor complex;0.0290285459467753;11778!GO:0007224;smoothened signaling pathway;0.0321662516056839;15531!GO:0005802;trans-Golgi network;0.0350032099612206;11778!GO:0030118;clathrin coat;0.0354965224870329;11778!GO:0008146;sulfotransferase activity;0.0439153450651711;15531!GO:0016782;transferase activity, transferring sulfur-containing groups;0.0458913605078615;15531!GO:0030117;membrane coat;0.0458913605078615;11778!GO:0048475;coated membrane;0.0458913605078615;11778!
}}
}}

Revision as of 12:56, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr17:23723181..23723236,-p1@Zfp13
Mm9::chr18:60907987..60908064,-p2@Ndst1
Mm9::chr2:130249978..130250029,-p1@Fam113a
Mm9::chr7:25858091..25858144,-p@chr7:25858091..25858144
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Mm9::chr7:25858149..25858183,-p@chr7:25858149..25858183
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Mm9::chr7:87065485..87065544,-p1@Ap3s2


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:0048702embryonic neurocranium morphogenesis0.0153391036659962
GO:0051923sulfation0.0153391036659962
GO:0006477protein amino acid sulfation0.0153391036659962
GO:0048703embryonic viscerocranium morphogenesis0.0184049074230457
GO:0015016[heparan sulfate]-glucosamine N-sulfotransferase activity0.0184049074230457
GO:0048701embryonic cranial skeleton morphogenesis0.0230036132428184
GO:0006476protein amino acid deacetylation0.026286962732604
GO:0048704embryonic skeletal morphogenesis0.0272973368109995
GO:0030901midbrain development0.0272973368109995
GO:0008543fibroblast growth factor receptor signaling pathway0.0272973368109995
GO:0048706embryonic skeletal development0.0272973368109995
GO:0005794Golgi apparatus0.0272973368109995
GO:0006022aminoglycan metabolic process0.0272973368109995
GO:0030203glycosaminoglycan metabolic process0.0272973368109995
GO:0007585respiratory gaseous exchange0.0272973368109995
GO:0000271polysaccharide biosynthetic process0.0272973368109995
GO:0048705skeletal morphogenesis0.0290285459467753
GO:0030119AP-type membrane coat adaptor complex0.0290285459467753
GO:0030131clathrin adaptor complex0.0290285459467753
GO:0007224smoothened signaling pathway0.0321662516056839
GO:0005802trans-Golgi network0.0350032099612206
GO:0030118clathrin coat0.0354965224870329
GO:0008146sulfotransferase activity0.0439153450651711
GO:0016782transferase activity, transferring sulfur-containing groups0.0458913605078615
GO:0030117membrane coat0.0458913605078615
GO:0048475coated membrane0.0458913605078615



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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