Constructing dense genetic linkage maps
Constructing dense genetic linkage maps
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DOI：
10.1007/s001220000489
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发表时间：
2001-05-01
影响因子：
5.4
通讯作者：
van Ooijen, JW
中科院分区：
文献类型：
--
作者：
Jansen, J;de Jong, AG;van Ooijen, JW
本文介绍了一种新的组合技术的密集遗传连锁图谱的建设。即使出现很小比例的打字错误，也会妨碍这种地图的绘制。模拟退火用于根据最优性标准获得最佳映射：重组事件的可能性或总数。标记的空间采样用于获得框架图。如果要求模拟退火的步骤简单，则框架图的构造是必不可少的。对于缺失数据插补，使用Gibbs采样器。使用模拟退火和缺失数据插补的地图建设中使用的迭代方式。为了获得遗传连锁图的精确度，使用Metropolis-Hastings算法来获得标记位置的后验间隔。地图建设的过程是嵌入在一个框架的映射前和映射后的诊断。所描述的技术说明使用实际应用。
This paper describes a novel combination of techniques for the construction of dense genetic linkage maps. The construction of such maps is hampered by the occurrence of even small proportions of typing errors. Simulated annealing is used to obtain the best map according to the optimality criterion: the likelihood or the total number of recombination events. Spatial sampling of markers is used to obtain a framework map. The construction of a framework map is essential if the steps used for simulated annealing are required to be simple. For missing-data imputation the Gibbs sampler is used. Map construction using simulated annealing and missing-data imputation are used in an iterative way. In order to obtain some measure of precision of the genetic linkage map obtained, the Metropolis-Hastings algorithm is used to obtain posterior intervals for the positions of markers. The process of map construction is embedded in a framework of pre-mapping and post-mapping diagnostics. The techniques described are illustrated using a practical application.