A guide to current methodology and usage of reverse vaccinology towards in silico vaccine discovery.

IF 10.1 2区 生物学 Q1 MICROBIOLOGY FEMS microbiology reviews Pub Date : 2023-03-10 DOI:10.1093/femsre/fuad004
Stephen J Goodswen, Paul J Kennedy, John T Ellis
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引用次数: 9

Abstract

Reverse vaccinology (RV) was described at its inception in 2000 as an in silico process that starts from the genomic sequence of the pathogen and ends with a list of potential protein and/or peptide candidates to be experimentally validated for vaccine development. Twenty-two years later, this process has evolved from a few steps entailing a handful of bioinformatics tools to a multitude of steps with a plethora of tools. Other in silico related processes with overlapping workflow steps have also emerged with terms such as subtractive proteomics, computational vaccinology, and immunoinformatics. From the perspective of a new RV practitioner, determining the appropriate workflow steps and bioinformatics tools can be a time consuming and overwhelming task, given the number of choices. This review presents the current understanding of RV and its usage in the research community as determined by a comprehensive survey of scientific papers published in the last seven years. We believe the current mainstream workflow steps and tools presented here will be a valuable guideline for all researchers wanting to apply an up-to-date in silico vaccine discovery process.

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指导目前的方法和使用反向疫苗学对硅疫苗的发现。
反向疫苗学(RV)在2000年开始时被描述为一个计算机过程,从病原体的基因组序列开始,以一份潜在的蛋白质和/或候选肽清单结束,以实验验证疫苗开发。22年后,这一过程已经从涉及少数生物信息学工具的几个步骤演变为涉及大量工具的多个步骤。其他具有重叠工作流程步骤的计算机相关过程也出现了诸如减法蛋白质组学、计算疫苗学和免疫信息学等术语。从新的RV从业者的角度来看,考虑到选择的数量,确定适当的工作流程步骤和生物信息学工具可能是一项耗时且压倒性的任务。这篇综述通过对过去七年发表的科学论文的全面调查,介绍了目前对RV的理解及其在研究界的使用情况。我们相信,目前的主流工作流程步骤和工具在这里提出的将是一个有价值的指导方针,所有研究人员希望应用最新的硅疫苗发现过程。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
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来源期刊
FEMS microbiology reviews
FEMS microbiology reviews 生物-微生物学
CiteScore
17.50
自引率
0.90%
发文量
45
审稿时长
6-12 weeks
期刊介绍: Title: FEMS Microbiology Reviews Journal Focus: Publishes reviews covering all aspects of microbiology not recently surveyed Reviews topics of current interest Provides comprehensive, critical, and authoritative coverage Offers new perspectives and critical, detailed discussions of significant trends May contain speculative and selective elements Aimed at both specialists and general readers Reviews should be framed within the context of general microbiology and biology Submission Criteria: Manuscripts should not be unevaluated compilations of literature Lectures delivered at symposia must review the related field to be acceptable
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