|Title||Deep whole-genome sequencing of 100 Southeast Asian Malays.|
|Publication Type||Journal Article|
|Year of Publication||2013|
|Authors||Wong, L-P, Ong, RT-H, Poh, W-T, Liu, X, Chen, P, Li, R, Lam, KK-Y, Pillai, NE, Sim, K-S, Xu, H, Sim, N-L, Teo, S-M, Foo, J-N, Tan, LW-L, Lim, Y, Koo, S-H, Gan, LS-H, Cheng, C-Y, Wee, S, Yap, EP-H, Ng, PC, Lim, W-Y, Soong, R, Wenk, MR, Aung, T, Wong, T-Y, Khor, C-C, Little, P, Chia, K-S, Teo, Y-Y|
|Journal||Am J Hum Genet|
|Date Published||2013 Jan 10|
|Keywords||asia, Malay, population structure, whole-genome|
Whole-genome sequencing across multiple samples in a population provides an unprecedented opportunity for comprehensively characterizing the polymorphic variants in the population. Although the 1000 Genomes Project (1KGP) has offered brief insights into the value of population-level sequencing, the low coverage has compromised the ability to confidently detect rare and low-frequency variants. In addition, the composition of populations in the 1KGP is not complete, despite the fact that the study design has been extended to more than 2,500 samples from more than 20 population groups. The Malays are one of the Austronesian groups predominantly present in Southeast Asia and Oceania, and the Singapore Sequencing Malay Project (SSMP) aims to perform deep whole-genome sequencing of 100 healthy Malays. By sequencing at a minimum of 30× coverage, we have illustrated the higher sensitivity at detecting low-frequency and rare variants and the ability to investigate the presence of hotspots of functional mutations. Compared to the low-pass sequencing in the 1KGP, the deeper coverage allows more functional variants to be identified for each person. A comparison of the fidelity of genotype imputation of Malays indicated that a population-specific reference panel, such as the SSMP, outperforms a cosmopolitan panel with larger number of individuals for common SNPs. For lower-frequency (
|Alternate Journal||Am. J. Hum. Genet.|
Deep whole-genome sequencing of 100 Southeast Asian Malays.
For years, I've worked on their bones. Now I'm working on their genes. Read more about the science studying these ancient people.
From a finger bone of an ancient human came the record of a completely unexpected population. My lab is working on the science of the Denisova genome.
The advent of agriculture caused natural selection to speed up greatly in humans. We're uncovering some of the ways that populations have rapidly changed during the last 10,000 years.