Institute of Environmental Sciences, Jagiellonian University, ul. Gronostajowa 7, Krakow 30-387, Poland.
Mol Ecol Resour. 2011 Jul;11(4):739-42. doi: 10.1111/j.1755-0998.2011.02997.x. Epub 2011 Feb 28.
Genotyping of multilocus gene families, such as the major histocompatibility complex (MHC), may be challenging because of problems with assigning alleles to loci and copy number variation among individuals. Simultaneous amplification and genotyping of multiple loci may be necessary, and in such cases, next-generation deep amplicon sequencing offers a great promise as a genotyping method of choice. Here, we describe jMHC, a computer program developed for analysing and assisting in the visualization of deep amplicon sequencing data. Software operates on FASTA files; therefore, output from any sequencing technology may be used. jMHC was designed specifically for MHC studies but it may be useful for analysing amplicons derived from other multigene families or for genotyping other polymorphic systems. The program is written in Java with user-friendly graphical interface (GUI) and can be run on Microsoft Windows, Linux OS and Mac OS.
多位点基因家族（如主要组织相容性复合体[MHC]）的基因分型可能具有挑战性，因为等位基因分配到基因座以及个体间拷贝数变异的问题。可能需要同时对多个基因座进行扩增和基因分型，在这种情况下，下一代深度扩增子测序作为一种首选的基因分型方法具有很大的优势。在这里，我们描述了 jMHC，这是一个用于分析和协助可视化深度扩增子测序数据的计算机程序。该软件在 FASTA 文件上运行；因此，可以使用任何测序技术的输出。jMHC 是专门为 MHC 研究设计的，但它也可能有助于分析来自其他多基因家族的扩增子，或用于对其他多态性系统进行基因分型。该程序是用 Java 编写的，具有用户友好的图形界面（GUI），可以在 Microsoft Windows、Linux OS 和 Mac OS 上运行。
