【1】Lloret-Villas A, Pausch H, Leonard AS. The size and composition of haplotype reference panels impact the accuracy of imputation from low-pass sequencing in cattle.Genet Sel Evol. 2023;55(1):33. Published 2023 May 11. doi:10.1186/s12711-023-00809-y
【2】Ding R, Savegnago R, Liu J, et al. The SWine IMputation (SWIM) haplotype reference panel enables nucleotide resolution genetic mapping in pigs.Commun Biol. 2023;6(1):577. Published 2023 May 30. doi:10.1038/s42003-023-04933-9
【3】Rubinacci S, Hofmeister RJ, Sousa da Mota B, Delaneau O. Imputation of low-coverage sequencing data from 150,119 UK Biobank genomes.Nat Genet. 2023;55(7):1088-1090. doi:10.1038/s41588-023-01438-3
【4】Martin AR, Atkinson EG, Chapman SB, et al. Low-coverage sequencing cost-effectively detects known and novel variation in underrepresented populations.Am J Hum Genet. 2021;108(4):656-668. doi:10.1016/j.ajhg.2021.03.012
【5】Tong X, Chen D, Hu J, et al. Accurate haplotype construction and detection of selection signatures enabled by high quality pig genome sequences.Nat Commun. 2023;14(1):5126. Published 2023 Aug 23. doi:10.1038/s41467-023-40434-3
【6】Fuller ZL, Mocellin VJL, Morris LA, et al. Population genetics of the coral Acropora millepora: Toward genomic prediction of bleaching.Science. 2020;369(6501):eaba4674. doi:10.1126/science.aba4674
【7】Zhang Z, Wang A, Hu H, et al. The efficient phasing and imputation pipeline of low‐coverage whole genome sequencing data using a high‐quality and publicly available reference panel in cattle[J]. Animal Research and One Health, 2023, 1(1): 4-16.
【8】Reich P, Falker-Gieske C, Pook T, et al. Development and validation of a horse reference panel for genotype imputation[J]. Genetics Selection Evolution, 2022, 54(1): 49.
【9】Sui M, Liu Z, Huang X, et al. Development and evaluation of a haplotype reference panel of Zhikong scallop (Chlamys farreri) for genotype imputation[J]. Aquaculture, 2024, 582: 740497.
【10】Wang X Q, Wang L G, Shi L Y, et al. Imputation strategies for low-coverage whole-genome sequencing data and their effects on genomic prediction and genome-wide association studies in pigs[J]. animal, 2024, 18(9): 101258.
【11】Zhang Z, Ma P, Zhang Z, et al. The construction of a haplotype reference panel using extremely low coverage whole genome sequences and its application in genome-wide association studies and genomic prediction in Duroc pigs[J]. Genomics, 2022, 114(1): 340-350.
【12】Yang R, Guo X, Zhu D, et al. Accelerated deciphering of the genetic architecture of agricultural economic traits in pigs using a low-coverage whole-genome sequencing strategy[J]. Gigascience, 2021, 10(7): giab048.
