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- Title
Comparison of the Data of a Next-Generation Sequencing Panel from K-MASTER Project with That of Orthogonal Methods for Detecting Targetable Genetic Alterations.
- Authors
Yoon Ji Choi; Jung Yoon Choi; Ju Won Kim; Ah Reum Lim; Youngwoo Lee; Won Jin Chang; Soohyeon Lee; Jae Sook Sung; Hee-Joon Chung; Jong Won Lee; Eun Joo Kang; Jung Sun Kim; Taekyu Lim; Hye Sook Kim; Yu Jung Kim; Mi Sun Ahn; Young Saing Kim; Ji Hyun Park; Seungtaek Lim; Sung Shim Cho
- Abstract
Purpose K-MASTER project is a Korean national precision medicine platform that screened actionable mutations by analyzing nextgeneration sequencing (NGS) of solid tumor patients. We compared gene analyses between NGS panel from the K-MASTER project and orthogonal methods. Materials and Methods Colorectal, breast, non-small cell lung, and gastric cancer patients were included. We compared NGS results from K-MASTER projects with those of non-NGS orthogonal methods (KRAS, NRAS, and BRAF mutations in colorectal cancer [CRC]; epidermal growth factor receptor [EGFR], anaplastic lymphoma kinase [ALK] fusion, and reactive oxygen species 1 [ROS1] fusion in non-small cell lung cancer [NSCLC], and Erb-B2 receptor tyrosine kinase 2 (ERBB2) positivity in breast and gastric cancers). Results In the CRC cohort (n=225), the sensitivity and specificity of NGS were 87.4% and 79.3% (KRAS); 88.9% and 98.9% (NRAS); and 77.8% and 100.0% (BRAF), respectively. In the NSCLC cohort (n=109), the sensitivity and specificity of NGS for EGFR were 86.2% and 97.5%, respectively. The concordance rate for ALK fusion was 100%, but ROS1 fusion was positive in only one of three cases that were positive in orthogonal tests. In the breast cancer cohort (n=260), ERBB2 amplification was detected in 45 by NGS. Compared with orthogonal methods that integrated immunohistochemistry and in situ hybridization, sensitivity and specificity were 53.7% and 99.4%, respectively. In the gastric cancer cohort (n=64), ERBB2 amplification was detected in six by NGS. Compared with orthogonal methods, sensitivity and specificity were 62.5% and 98.2%, respectively. Conclusion The results of the K-MASTER NGS panel and orthogonal methods showed a different degree of agreement for each genetic alteration, but generally showed a high agreement rate.
- Subjects
ANAPLASTIC lymphoma kinase; NUCLEOTIDE sequencing; EPIDERMAL growth factor receptors; NON-small-cell lung carcinoma; PROTEIN-tyrosine kinases; STOMACH cancer
- Publication
Cancer Research & Treatment, 2022, Vol 54, Issue 1, p30
- ISSN
1598-2998
- Publication type
Article
- DOI
10.4143/crt.2021.218