YHap: a population model for probabilistic assignment of Y haplogroups from re-sequencing data.
BMC Bioinformatics
; 14: 331, 2013 Nov 19.
Article
em En
| MEDLINE
| ID: mdl-24252171
ABSTRACT
BACKGROUND:
Y haplogroup analyses are an important component of genealogical reconstruction, population genetic analyses, medical genetics and forensics. These fields are increasingly moving towards use of low-coverage, high throughput sequencing. While there have been methods recently proposed for assignment of Y haplogroups on the basis of high-coverage sequence data, assignment on the basis of low-coverage data remains challenging.RESULTS:
We developed a new algorithm, YHap, which uses an imputation framework to jointly predict Y chromosome genotypes and assign Y haplogroups using low coverage population sequence data. We use data from the 1000 genomes project to demonstrate that YHap provides accurate Y haplogroup assignment with less than 2x coverage.CONCLUSIONS:
Borrowing information across multiple samples within a population using an imputation framework enables accurate Y haplogroup assignment.
Texto completo:
1
Base de dados:
MEDLINE
Assunto principal:
Haplótipos
/
Análise de Sequência de DNA
/
Cromossomos Humanos Y
/
Genética Populacional
Tipo de estudo:
Prognostic_studies
Limite:
Humans
/
Male
Idioma:
En
Ano de publicação:
2013
Tipo de documento:
Article