ViralPrimer：一个用于监测大流行期间病毒核酸扩增检测引物效率的网络服务器，重点关注 SARS-CoV-2 和猴痘。
ViralPrimer: a web server to monitor viral nucleic acid amplification tests' primer efficiency during pandemics, with emphasis on SARS-CoV-2 and Mpox.
机构信息
Department of Biochemistry, Institute of Biology, ELTE Eötvös Loránd University, Budapest H-1117, Hungary.
Department of Physics of Complex Systems, Institute of Physics and Astronomy, ELTE Eötvös Loránd University, Budapest H-1117, Hungary.
出版信息
Bioinformatics. 2024 Nov 1;40(11). doi: 10.1093/bioinformatics/btae657.
SUMMARY
Accurate pathogen identification is crucial during outbreaks, especially with the emergence of new variants requiring frequent primer updates. However, resources for maintaining up-to-date verification of primer sequences are often limited, which poses challenges for reliable diagnosis and hinders potential monitoring efforts based on genome sequencing. To address this, we introduce ViralPrimer, a web server facilitating primer design, SARS-CoV-2 and Mpox variant monitoring, and adaptation to future threats. ViralPrimer aims to enhance diagnostic accuracy with its comprehensive primer database, mutation analysis assistance, and user primer upload feature. Its adaptable design allows monitoring of other rapidly mutating pathogens, contributing to broader public health protection efforts.
AVAILABILITY AND IMPLEMENTATION
ViralPrimer is freely accessible and open to all users with no login requirement at https://viralprimer.elte.hu/. The application is hosted on a DJANGO v3.2.13 web server, with a PostgreSQL database, and the frontend was implemented using jQuery v3.6.0, vanilla JavaScript vES6, and Bootstrap v5.1.
摘要
在疫情爆发期间，准确的病原体鉴定至关重要，特别是随着需要频繁更新引物的新变体的出现。然而，用于维护引物序列最新验证的资源通常是有限的，这给可靠诊断带来了挑战，并阻碍了基于基因组测序的潜在监测工作。为了解决这个问题，我们引入了 ViralPrimer，这是一个网络服务器，用于引物设计、SARS-CoV-2 和猴痘变体监测以及应对未来威胁。ViralPrimer 旨在通过其全面的引物数据库、突变分析辅助和用户引物上传功能来提高诊断准确性。其适应性设计允许监测其他快速突变的病原体，为更广泛的公共卫生保护工作做出贡献。
可用性和实现
ViralPrimer 可免费访问，无需登录，所有用户均可在 https://viralprimer.elte.hu/ 上使用。该应用程序托管在一个 DJANGO v3.2.13 网络服务器上，使用 PostgreSQL 数据库，前端使用 jQuery v3.6.0、vanilla JavaScript vES6 和 Bootstrap v5.1 实现。
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