ARMADiLLO:一个用于分析抗体突变概率的网络服务器。
ARMADiLLO: a web server for analyzing antibody mutation probabilities.
机构信息
Duke Human Vaccine Institute, Duke University Medical Center; Durham, NC27710, USA.
Department of Immunology, Duke University Medical Center; Durham, NC27710, USA.
出版信息
Nucleic Acids Res. 2023 Jul 5;51(W1):W51-W56. doi: 10.1093/nar/gkad398.
Antibodies are generated by B cells that evolve receptor specificity to pathogens through rounds of mutation and selection in a process called affinity maturation. Somatic hypermutation is mediated by an enzyme with DNA sequence context-dependent targeting and substitution resulting in variable probabilities of amino acid substitutions during affinity maturation. We have previously developed a program called Antigen Receptor Mutation Analyzer for the Detection of Low Likelihood Occurrences (ARMADiLLO) that performs simulations of the somatic hypermutation process to estimate the probabilities of observed antibody mutations. Here we describe the ARMADiLLO web server (https://armadillo.dhvi.duke.edu), an easy-to-use web interface that analyzes input antibody sequences and displays the probability estimates for all possible amino acid changes over the full length of an antibody sequence. The probability of antibody mutations can be used by immunologists studying B cell ontogenies and by vaccine designers that are pursuing strategies to elicit broadly neutralizing antibodies which are enriched with developmentally rate-limiting improbable mutations. The ARMADiLLO web server also contains precomputed results reporting the probability of amino acid substitutions in all human V gene segments and in a collection of HIV broadly neutralizing antibodies.
抗体是由 B 细胞产生的,B 细胞通过在称为亲和力成熟的过程中进行 rounds of mutation 和 selection,进化出对病原体的受体特异性。体细胞高频突变是由一种具有 DNA 序列上下文依赖性靶向和替换的酶介导的,导致在亲和力成熟过程中氨基酸替换的概率发生可变。我们之前开发了一个名为抗原受体突变分析器用于检测低可能性事件 (ARMADiLLO) 的程序,该程序对体细胞高频突变过程进行模拟,以估计观察到的抗体突变的概率。在这里,我们描述了 ARMADiLLO 网络服务器 (https://armadillo.dhvi.duke.edu),这是一个易于使用的网络界面,可分析输入抗体序列,并显示抗体序列全长上所有可能氨基酸变化的概率估计。正在研究 B 细胞发生和发展的免疫学家以及正在研究引发富含发育限速不可能突变的广泛中和抗体的疫苗设计师可以使用抗体突变的概率。ARMADiLLO 网络服务器还包含预先计算的结果,报告所有人类 V 基因片段和一组 HIV 广泛中和抗体中氨基酸替换的概率。