Reference : Patrocles: a database of polymorphic miRNA-mediated gene regulation in vertebrates
Scientific journals : Article
Life sciences : Genetics & genetic processes
http://hdl.handle.net/2268/34714
Patrocles: a database of polymorphic miRNA-mediated gene regulation in vertebrates
English
[fr] Patrocles : Une base de données de régulation génétique par miARN polymorphiques chez les vertébrés
Hiard, Samuel mailto [Université de Liège - ULg > Dép. d'électric., électron. et informat. (Inst.Montefiore) > Systèmes et Modélisation > >]
Charlier, Carole mailto [Université de Liège - ULg > Département de productions animales > GIGA-R : Génomique animale >]
Coppieters, Wouter mailto [Université de Liège - ULg > Département de productions animales > Département de productions animales >]
Georges, Michel mailto [Université de Liège - ULg > Département de productions animales > GIGA-R : Génomique animale >]
Baurain, Denis mailto [Université de Liège - ULg > Département de productions animales > GIGA-R : Génomique animale >]
2010
Nucleic Acids Research
Oxford University Press
38
Database
D640-D651
Yes (verified by ORBi)
International
0305-1048
1362-4962
Oxford
United Kingdom
[en] Patrocles ; miRNA ; regulation ; gene ; polymorphic ; database
[en] The Patrocles database (http://www.patrocles.org/) compiles DNA sequence polymorphisms (DSPs) that are predicted to perturb miRNA-mediated gene regulation. Distinctive features include: (i) the coverage of seven vertebrate species in its present release, aiming for more when information becomes available, (ii) the coverage of the three compartments involved in the silencing process (i.e. targets, miRNA precursors and silencing machinery), (iii) contextual information that enables users to prioritize candidate ‘Patrocles DSPs’, including graphical information on miRNA-target coexpression and eQTL effect of genotype on target expression levels, (iv) the inclusion of Copy Number Variants and eQTL information that affect miRNA precursors as well as genes encoding components of the silencing machinery and (v) a tool (Patrocles finder) that allows the user to determine whether her favorite DSP may perturb miRNA-mediated gene regulation of custom target sequences. To support the biological relevance of Patrocles' content, we searched for signatures of selection acting on ‘Patrocles single nucleotide polymorphisms (pSNPs)’ in human and mice. As expected, we found a strong signature of purifying selection against not only SNPs that destroy conserved target sites but also against SNPs that create novel, illegitimate target sites, which is reminiscent of the Texel mutation in sheep.
SystMod
Ulg
Researchers ; Professionals
http://hdl.handle.net/2268/34714
10.1093/nar/gkp926
http://www.patrocles.org/

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