Genetic mapping in the presence of genotyping errors
Genetic mapping in the presence of genotyping errors
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DOI：
10.1534/genetics.106.063982
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发表时间：
2007-08-01
期刊：
影响因子：
3.3
通讯作者：
Gutin, Alexander
中科院分区：
文献类型：
--
作者：
Cartwright, Dustin A.;Troggio, Michela;Gutin, Alexander
遗传图谱是利用许多相关个体的基因类型建立起来的。这些数据集中的基因分型错误可能会扭曲遗传图谱，特别是通过夸大距离。我们已经扩展了用于遗传图谱的传统似然模型，以包括基因分型错误的可能性。每个单独的标记都被分配了一个错误率，这是从数据中推断出来的，就像遗传距离一样。我们已经开发了一个名为TMAP的软件包，它使用这个模型来寻找已知相谱的最大似然图。我们已经使用VITIS的数据集和模拟数据测试了我们的方法，并确认我们的方法大大减少了由于增加标记数量而引起的通胀效应，并导致更准确的订单。
Genetic maps are built using the genotypes of many related individuals. Genotyping errors in these data sets can distort genetic maps, especially by inflating the distances. We have extended the traditional likelihood model used for genetic mapping to include the possibility of genotyping errors. Each individual marker is assigned an error rate, which is inferred from the data, just as the genetic distances are. We have developed a software package, called TMAP, which uses this model to find maximum-likelihood maps for phase-known pedigrees. We have tested our methods using a data set in Vitis and on simulated data and confirmed that our method dramatically reduces the inflationary effect caused by increasing the number of markers and leads to more accurate orders.