在德国个性化医学网络中对整个外体组序列进行基准测试
Michael Menzel1, Mihaela Martis-Thiele2, Hannah Goldschmid1
1Institute of Pathology, Heidelberg University Hospital, Heidelberg, Germany; Centers for Personalized Medicine (ZPM), Germany.
概括
在优化变体过后,全外体测序 (WES) 显示了癌症生物标志物的高一致性. 湿实验室可变性,而不是生物信息学,主要影响副本数量变化和复杂生物标志物的准确性.
科学领域:
- 基因组医学是基因组医学.
- 临床诊断 临床诊断 临床诊断
- 癌症基因组学 癌症基因组学
背景情况:
- 整体外体测序 (WES) 是全面癌症诊断的强大工具,可以分析所有基因和复杂的生物标志物.
- 它比传统的基于小组的方法提供了更广泛的范围.
研究的目的:
- 在多个中心的临床癌症诊断中评估整体外体测序 (WES) 的一致性.
- 为了识别变异调用,拷贝数变化 (CNA) 和复杂生物标志物决定的变异性来源.
主要方法:
- 六个FFPE组织样本和四个参考标准被WES在21个德国NGS中心分析.
- 研究了体质和生殖系变异,CNA和生物标志物 (HRD,TMB,MSI).
- 数据经过中央再分析,以区分湿实验室和生物信息学变异性.
主要成果:
- 最初的体质变异调用显示了76%的积极百分比协议 (PPA) 和89%的积极预测值 (PPV).
- 优化过将PPA提高到88% (所有变体) 和97% (临床相关变体).
- 对CNA的一致性为82%,而HRD,TMB和MSI的一致性高 (93-94%). 湿实验室差异是CNA和复杂生物标志物变异的主要来源.
结论:
- 建议对生物信息学工作流程进行持续优化,以实现全系外体测序 (WES).
- 参与能力测试 (轮测试) 对于提高诊断准确性和一致性至关重要.
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