Incorporating genetic selection into individual-based models (IBMs) of malaria and other infectious diseases
Incorporating genetic selection into individual-based models (IBMs) of malaria and other infectious diseases
复制标题
将遗传选择纳入疟疾和其他传染病的个体模型 (IBM)
DOI：
10.1101/819367
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发表时间：
2019
期刊：
影响因子：
--
通讯作者：
Hastings I
中科院分区：
文献类型：
--
作者：
Hastings I
通常使用基于个体的模型（IBMs）来调查人类感染的控制策略，以量化其在死亡率、发病率和对传播的影响方面的影响。遗传选择可以被纳入ibm来跟踪突变的传播，这些突变的起源和传播是由干预驱动的，随后破坏了控制策略；典型的例子是编码耐药性或诊断或疫苗逃逸表型的突变。方法和结果我们使用IBM OpenMalaria模拟疟疾耐药性的传播，以研究有限大小的IBM如何需要策略来最优地结合遗传选择。我们提出四点建议。首先，计算并报告优势等位基因作为关键遗传参数的选择系数s；其次，使用这些“s”值来计算等待时间，直到突变成功地在病原体群体中建立起来。第三，确定IBM在稳健估计小选择系数方面的固有局限性。第四，优化计算效率：当“s”较小时，大型ibm的较少复制可能比大型ibm的较多复制更有效率。IBM的疟疾是一个范例，同样的原则也适用于IBM的其他疾病。
IntroductionControl strategies for human infections are often investigated using individual‐based models (IBMs) to quantify their impact in terms of mortality, morbidity and impact on transmission. Genetic selection can be incorporated into the IBMs to track the spread of mutations whose origin and spread are driven by the intervention and which subsequently undermine the control strategy; typical examples are mutations which encode drug resistance or diagnosis‐ or vaccine‐escape phenotypes.Methods and resultsWe simulated the spread of malaria drug resistance using the IBM OpenMalaria to investigate how the finite sizes of IBMs require strategies to optimally incorporate genetic selection. We make four recommendations. Firstly, calculate and report the selection coefficients,s, of the advantageous allele as the key genetic parameter. Secondly, use these values of “s” to calculate the wait time until a mutation successfully establishes itself in the pathogen population. Thirdly, identify the inherent limits of the IBM to robustly estimate small selection coefficients. Fourthly, optimize computational efficacy: when “s” is small, fewer replicates of larger IBMs may be more efficient than a larger number of replicates of smaller size.DiscussionThe OpenMalaria IBM of malaria was an exemplar and the same principles apply to IBMs of other diseases.
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DOI：
10.4269/ajtmh.1996.54.62
发表时间：
1996-01-01
影响因子：
3.3
作者：
Looareesuwan, S;Viravan, C;Canfield, CJ
通讯作者：
Canfield, CJ
乙胺嘧啶治疗东南亚疟疾的选择性清除
DOI：
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发表时间：
2003
期刊：
影响因子：
--
作者：
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1974
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作者：
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DOI：
10.1016/s0140-6736(15)00725-4
发表时间：
2016-01-23
期刊：
Lancet (London, England)
影响因子：
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作者：
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影响因子：
10.7
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