Admixture aberration analysis: application to mapping in admixed population using pooled DNA.
J Comput Biol
; 18(3): 237-49, 2011 Mar.
Article
in En
| MEDLINE
| ID: mdl-21385031
ABSTRACT
Abstract Admixture mapping is a gene mapping approach used for the identification of genomic regions harboring disease susceptibility genes in the case of recently admixed populations such as African Americans. We present a novel method for admixture mapping, called admixture aberration analysis (AAA) that uses a DNA pool of affected admixed individuals. We demonstrate through simulations that AAA is a powerful and economical mapping method under a range of scenarios, capturing complex human diseases such as hypertension and end-stage kidney disease. The method has a low false-positive rate and is robust to deviation from model assumptions. Finally, we apply AAA on 600 prostate cancer-affected African Americans, replicating a known risk locus. Simulation results indicate that the method can yield over 96% reduction in genotyping. Our method is implemented as a Java program called AAAmap and is freely available at http//bioinfo.cs.technion.ac.il/AAAmap.
Full text:
1
Collection:
01-internacional
Database:
MEDLINE
Main subject:
Prostatic Neoplasms
/
DNA
/
Chromosome Mapping
/
Genetic Predisposition to Disease
Limits:
Humans
/
Male
Language:
En
Journal:
J Comput Biol
Journal subject:
BIOLOGIA MOLECULAR
/
INFORMATICA MEDICA
Year:
2011
Document type:
Article
Affiliation country:
Israel