论文标题
一个公共网站，用于自动评估和验证SARS-COV-2诊断PCR分析
A Public Website for the Automated Assessment and Validation of SARS-CoV-2 Diagnostic PCR Assays
论文作者
论文摘要
摘要：基于聚合酶链反应的测定是目前用于检测和诊断SARS-COV-2的黄金标准。但是，作为SARS-COV-2突变，我们需要不断评估现有的基于PCR的测定是否会继续检测所有已知的病毒株。为了启用对SARS-COV-2分析的持续监视，我们开发了一种基于Web的测定验证算法，该算法使用热力学和编辑距离指标对SARS-COV-2的不断扩展的基因组数据库检查现有的基于PCR的测定。测定结果显示为热图，显示了每个检测与每个SARS-COV-2基因组序列之间的不匹配数量。使用不匹配阈值定义检测失败，用真实的正速率（召回）总结了测定性能以简化测定比较。可用性：https：//covid19.gebioinformatics.org/#/assayvalidation。联系人：Jason Gans（[email protected]）和Patrick Chain（[email protected]）
Summary: Polymerase chain reaction-based assays are the current gold standard for detecting and diagnosing SARS-CoV-2. However, as SARS-CoV-2 mutates, we need to constantly assess whether existing PCR-based assays will continue to detect all known viral strains. To enable the continuous monitoring of SARS-CoV-2 assays, we have developed a web-based assay validation algorithm that checks existing PCR-based assays against the ever-expanding genome databases for SARS-CoV-2 using both thermodynamic and edit-distance metrics. The assay screening results are displayed as a heatmap, showing the number of mismatches between each detection and each SARS-CoV-2 genome sequence. Using a mismatch threshold to define detection failure, assay performance is summarized with the true positive rate (recall) to simplify assay comparisons. Availability: https://covid19.edgebioinformatics.org/#/assayValidation. Contact: Jason Gans ([email protected]) and Patrick Chain ([email protected])
