The efficacy of short tandem repeat polymorphisms versus single-nucleotide polymorphisms for resolving population structure
The efficacy of short tandem repeat polymorphisms versus single-nucleotide polymorphisms for resolving population structure
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DOI：
10.1186/1471-2156-6-s1-s84
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发表时间：
2005-12-30
期刊：
影响因子：
2.9
通讯作者：
Suarez, BK
中科院分区：
文献类型：
--
作者：
Kauwe, JSK;Bertelsen, S;Suarez, BK
准确地解析样本中的群体结构对于连锁和关联研究都很重要。在这项研究中，我们调查了单核苷酸多态性（SNPs）在检测286个无关个体的样本中的群体结构的能力。我们改变了SNP的数量，以确定需要多少SNP才能达到酒精中毒遗传学合作研究（COGA）短串联重复多态性（STRP）获得的分辨率程度。此外，我们选择了具有不同次要等位基因频率（MAF）的SNP，以确定低频率或高频率SNP在解决群体结构方面是否更有效。我们得出结论，需要一组至少100个均匀间隔的SNP，MAF为40 - 50%，以解决该数据集中的群体结构。如果使用具有较低MAF的SNP，则可能需要超过250个SNP来获得可靠的结果。
Accurately resolving population structure in a sample is important for both linkage and association studies. In this study we investigated the power of single-nucleotide polymorphisms ( SNPs) in detecting population structure in a sample of 286 unrelated individuals. We varied the number of SNPs to determine how many are required to approach the degree of resolution obtained with the Collaborative Study on the Genetics of Alcoholism (COGA) short tandem repeat polymorphisms (STRPs). In addition, we selected SNPs with varying minor allele frequencies (MAFs) to determine whether low or high frequency SNPs are more efficient in resolving population structure. We conclude that a set of at least 100 evenly spaced SNPs with MAFs of 40 - 50% is required to resolve population structure in this dataset. If SNPs with lower MAFs are used, then more than 250 SNPs may be required to obtain reliable results.