Determination of Major Lineages of Mycobacterium tuberculosis Complex using Mycobacterial Interspersed Repetitive Units.
Determination of Major Lineages of Mycobacterium tuberculosis Complex using Mycobacterial Interspersed Repetitive Units.
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DOI：
10.1109/bibm.2009.86
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发表时间：
2009-11-01
期刊：
影响因子：
--
通讯作者：
Bennett KP
中科院分区：
文献类型：
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作者：
Aminian M;Shabbeer A;Bennett KP
我们提出了一种新的贝叶斯网络（BN）分类菌株结核分枝杆菌复合体（MTBC）到六个主要的遗传谱系使用分枝杆菌散在重复单位（MIRU），一个高通量的生物标志物。MTBC是结核病（TB）的病原体，结核病仍然是世界范围内疾病和发病率的主要原因之一。MIRU等DNA指纹鉴定方法是现代结核病控制和跟踪的关键组成部分。BN在由超过4700个不同的12位点MIRU基因型组成的四个大型MTBC基因型集合上实现了高准确性。BN捕获与每个谱系相关的不同MIRU签名，解释了BN的优异性能。BN中的错误支持需要额外的生物标志物，例如自2009年5月以来CDC基因分型实验室使用的扩展的24位点MIRU。给定谱系的每个基因座的条件独立性假设使得BN容易扩展到另外的MIRU基因座和其他生物标志物。
We present a novel Bayesian network (BN) to classify strains of Mycobacterium tuberculosis Complex (MTBC) into six major genetic lineages using mycobacterial interspersed repetitive units (MIRUs), a high-throughput biomarker. MTBC is the causative agent of tuberculosis (TB), which remains one of the leading causes of disease and morbidity world-wide. DNA fingerprinting methods such as MIRU are key components of modern TB control and tracking. The BN achieves high accuracy on four large MTBC genotype collections consisting of over 4700 distinct 12-loci MIRU genotypes. The BN captures distinct MIRU signatures associated with each lineage, explaining the excellent performance of the BN. The errors in the BN support the need for additional biomarkers such as the expanded 24-loci MIRU used in CDC genotyping labs since May 2009. The conditional independence assumption of each locus given the lineage makes the BN easily extensible to additional MIRU loci and other biomarkers.