title: Efficient imputation of missing markers in low-coverage genotyping-by-sequencing data from multiparental crosses.
abstract: We consider genomic imputation for low-coverage genotyping-by-sequencing data with high levels of missing data. We compensate for this loss of information by utilizing family relationships in multiparental experimental crosses. This nearly quadruples the number of usable markers when applied to a large rice Multiparent Advanced Generation InterCross (MAGIC) study.
authors.affiliation: Computational Informatics and Food Futures Flagship, Commonwealth Scientific and Industrial Research Organization, Dutton Park, Queensland, Australia 4102.
authors.forename: B Emma
authors.initials: BE
authors.lastname: Huang
authors.forename: Chitra
authors.initials: C
authors.lastname: Raghavan
authors.forename: Ramil
authors.initials: R
authors.lastname: Mauleon
authors.forename: Karl W
authors.initials: KW
authors.lastname: Broman
authors.forename: Hei
authors.initials: H
authors.lastname: Leung
mesh_terms: D056808:Biostatistics / Q000379:methods*; D005819:Genetic Markers / Q000235:genetics*; D023281:Genomics; D060005:Genotyping Techniques; D006824:Hybridization, Genetic; D012275:Oryza / Q000235:genetics; D017421:Sequence Analysis
chemical_list: D005819:Genetic Markers
keywords: GBS; HMM; MAGIC; MPRIL