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Data Interoperability of Whole Exome Sequencing (WES) Based Mutational Burden Estimates from Different Laboratories
Ping Qiu1, Ling Pang2, Gladys Arreaza3
1Translational Molecular Biomarkers, Merck Research Laboratories, Merck & Co., Inc., 126 E. Lincoln Avenue, Rahway, NJ 07065, USA. ping.qiu@merck.com.
Whole exome sequencing (WES) data from different vendors can be combined for accurate tumor mutational burden analysis. This standardization is crucial for guiding cancer treatment with immune checkpoint inhibitors.
Area of Science:
- Oncology
- Genomics
- Immunotherapy
Background:
- Immune checkpoint inhibitors (ICIs) revolutionize cancer treatment by activating T cells against tumors.
- Higher tumor mutational burden (TMB) correlates with better response to ICIs.
- Whole exome sequencing (WES) is key for assessing TMB, but data variability is a challenge.
Purpose of the Study:
- To evaluate the data interoperability of WES data from multiple commercial vendors.
- To assess the reliability of TMB estimates across different WES data sources.
- To determine if WES data can be uniformly analyzed for clinical application.
Main Methods:
- Compared WES data from five commercial vendors using matched tumor/normal samples.
- Analyzed raw next-generation sequencing (NGS) data independently.
- Assessed data discrepancies and quantitative estimates of TMB.
Main Results:
- Significant data discrepancies were found in vendors' self-reported data.
- Independent analysis revealed that WES data from qualified vendors can be combined.
- Uniform analysis yields comparable quantitative estimates of TMB.
Conclusions:
- Standardized analysis of WES data from qualified vendors is feasible.
- This approach enables reliable TMB assessment for guiding ICI therapy.
- Interoperability of WES data is achievable, supporting clinical decision-making.
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