The clinical relevance of surgical specimens for RNA sequencing in lung cancer: a cohort study
BackgroundMolecular screening using next-generation sequencing (NGS) in the pathologic evaluation of lung cancer is considered the standard in clinical practice; hence, we evaluated the diagnostic yields of various sampling methods for NGS.MethodsNGS data from patients with lung cancer at the Pusan...
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Frontiers Media S.A.
2024-10-01
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| Series: | Frontiers in Oncology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fonc.2024.1462519/full |
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| author | Jung Seop Eom Jung Seop Eom Jung Seop Eom Soo Han Kim Soo Han Kim Kyungbin Kim Ahrong Kim Ahrong Kim Hyo Yeong Ahn Jeongha Mok Jeongha Mok Jeongha Mok Jeong Su Cho Min Ki Lee Min Ki Lee Ju Sun Song Mi-Hyun Kim Mi-Hyun Kim Mi-Hyun Kim |
| author_facet | Jung Seop Eom Jung Seop Eom Jung Seop Eom Soo Han Kim Soo Han Kim Kyungbin Kim Ahrong Kim Ahrong Kim Hyo Yeong Ahn Jeongha Mok Jeongha Mok Jeongha Mok Jeong Su Cho Min Ki Lee Min Ki Lee Ju Sun Song Mi-Hyun Kim Mi-Hyun Kim Mi-Hyun Kim |
| author_sort | Jung Seop Eom |
| collection | DOAJ |
| description | BackgroundMolecular screening using next-generation sequencing (NGS) in the pathologic evaluation of lung cancer is considered the standard in clinical practice; hence, we evaluated the diagnostic yields of various sampling methods for NGS.MethodsNGS data from patients with lung cancer at the Pusan National University Hospital (Busan, South Korea), admitted October, 2020–April, 2023, was obtained. The sampling methods by which NGS data was obtained were divided into surgical and nonsurgical. Surgical methods included thoracoscopic surgery, surgical biopsy from the metastatic site, and lymph node excisional biopsy, whereas nonsurgical methods included bronchoscopy procedures and medical thoracoscopic biopsy.ResultsIn total, we obtained 319 patients’ NGS data:150 (47.0%) and 169 (53.0%) was obtained using surgical and nonsurgical methods, respectively. The overall diagnostic yield of NGS analysis was 97.5% for all samples. There were no significant differences in the success rates of deoxyribonucleic acid sequencing between surgical and nonsurgical sampling methods (98.0% vs. 96.4%, p = 0.313). On the other hand, the success rate of ribonucleic acid (RNA) sequencing was significantly lower in the surgical method group (78.0% vs. 92.3%; p < 0.001). Multivariate analysis showed that surgical sampling significantly correlated with RNA sequencing failure (Odd Ratio 4.128, 95% Confidence Interval 1.681–10.133, p = 0.002).ConclusionsSmall samples obtained using nonsurgical procedures are suitable for NGS analysis in clinical practice. However, surgical sampling showed a relatively lower success rate for RNA sequencing than nonsurgical sampling. This information may help in the development of protocols to reduce RNA degradation during the surgical process. |
| format | Article |
| id | doaj-art-a6ab2b4bcf674b60b66570be73edea6f |
| institution | OA Journals |
| issn | 2234-943X |
| language | English |
| publishDate | 2024-10-01 |
| publisher | Frontiers Media S.A. |
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| series | Frontiers in Oncology |
| spelling | doaj-art-a6ab2b4bcf674b60b66570be73edea6f2025-08-20T01:47:50ZengFrontiers Media S.A.Frontiers in Oncology2234-943X2024-10-011410.3389/fonc.2024.14625191462519The clinical relevance of surgical specimens for RNA sequencing in lung cancer: a cohort studyJung Seop Eom0Jung Seop Eom1Jung Seop Eom2Soo Han Kim3Soo Han Kim4Kyungbin Kim5Ahrong Kim6Ahrong Kim7Hyo Yeong Ahn8Jeongha Mok9Jeongha Mok10Jeongha Mok11Jeong Su Cho12Min Ki Lee13Min Ki Lee14Ju Sun Song15Mi-Hyun Kim16Mi-Hyun Kim17Mi-Hyun Kim18Department of Internal Medicine, Pusan National University School of Medicine, Busan, Republic of KoreaDepartment of Internal Medicine, Pusan National University Hospital, Busan, Republic of KoreaBiomedical Research Institute, Pusan National University Hospital, Busan, Republic of KoreaDepartment of Internal Medicine, Pusan National University Hospital, Busan, Republic of KoreaBiomedical Research Institute, Pusan National University Hospital, Busan, Republic of KoreaDepartment of Pathology, Pusan National University Hospital, Busan, Republic of KoreaDepartment of Pathology, Pusan National University Hospital, Busan, Republic of KoreaDepartment of Pathology, Pusan National University School of Medicine, Busan, Republic of KoreaDepartment of Thoracic and Cardiovascular Surgery, Pusan National University School of Medicine, Busan, Republic of KoreaDepartment of Internal Medicine, Pusan National University School of Medicine, Busan, Republic of KoreaDepartment of Internal Medicine, Pusan National University Hospital, Busan, Republic of KoreaBiomedical Research Institute, Pusan National University Hospital, Busan, Republic of KoreaDepartment of Thoracic and Cardiovascular Surgery, Pusan National University School of Medicine, Busan, Republic of KoreaDepartment of Internal Medicine, Pusan National University School of Medicine, Busan, Republic of KoreaDepartment of Internal Medicine, Pusan National University Hospital, Busan, Republic of KoreaDepartment of Laboratory Medicine, Green Cross (GC) Genome Corporation, Yongin, Republic of KoreaDepartment of Internal Medicine, Pusan National University School of Medicine, Busan, Republic of KoreaDepartment of Internal Medicine, Pusan National University Hospital, Busan, Republic of KoreaBiomedical Research Institute, Pusan National University Hospital, Busan, Republic of KoreaBackgroundMolecular screening using next-generation sequencing (NGS) in the pathologic evaluation of lung cancer is considered the standard in clinical practice; hence, we evaluated the diagnostic yields of various sampling methods for NGS.MethodsNGS data from patients with lung cancer at the Pusan National University Hospital (Busan, South Korea), admitted October, 2020–April, 2023, was obtained. The sampling methods by which NGS data was obtained were divided into surgical and nonsurgical. Surgical methods included thoracoscopic surgery, surgical biopsy from the metastatic site, and lymph node excisional biopsy, whereas nonsurgical methods included bronchoscopy procedures and medical thoracoscopic biopsy.ResultsIn total, we obtained 319 patients’ NGS data:150 (47.0%) and 169 (53.0%) was obtained using surgical and nonsurgical methods, respectively. The overall diagnostic yield of NGS analysis was 97.5% for all samples. There were no significant differences in the success rates of deoxyribonucleic acid sequencing between surgical and nonsurgical sampling methods (98.0% vs. 96.4%, p = 0.313). On the other hand, the success rate of ribonucleic acid (RNA) sequencing was significantly lower in the surgical method group (78.0% vs. 92.3%; p < 0.001). Multivariate analysis showed that surgical sampling significantly correlated with RNA sequencing failure (Odd Ratio 4.128, 95% Confidence Interval 1.681–10.133, p = 0.002).ConclusionsSmall samples obtained using nonsurgical procedures are suitable for NGS analysis in clinical practice. However, surgical sampling showed a relatively lower success rate for RNA sequencing than nonsurgical sampling. This information may help in the development of protocols to reduce RNA degradation during the surgical process.https://www.frontiersin.org/articles/10.3389/fonc.2024.1462519/fullnext-generation sequencingRNAsurgical proceduresoperativelung neoplasm |
| spellingShingle | Jung Seop Eom Jung Seop Eom Jung Seop Eom Soo Han Kim Soo Han Kim Kyungbin Kim Ahrong Kim Ahrong Kim Hyo Yeong Ahn Jeongha Mok Jeongha Mok Jeongha Mok Jeong Su Cho Min Ki Lee Min Ki Lee Ju Sun Song Mi-Hyun Kim Mi-Hyun Kim Mi-Hyun Kim The clinical relevance of surgical specimens for RNA sequencing in lung cancer: a cohort study Frontiers in Oncology next-generation sequencing RNA surgical procedures operative lung neoplasm |
| title | The clinical relevance of surgical specimens for RNA sequencing in lung cancer: a cohort study |
| title_full | The clinical relevance of surgical specimens for RNA sequencing in lung cancer: a cohort study |
| title_fullStr | The clinical relevance of surgical specimens for RNA sequencing in lung cancer: a cohort study |
| title_full_unstemmed | The clinical relevance of surgical specimens for RNA sequencing in lung cancer: a cohort study |
| title_short | The clinical relevance of surgical specimens for RNA sequencing in lung cancer: a cohort study |
| title_sort | clinical relevance of surgical specimens for rna sequencing in lung cancer a cohort study |
| topic | next-generation sequencing RNA surgical procedures operative lung neoplasm |
| url | https://www.frontiersin.org/articles/10.3389/fonc.2024.1462519/full |
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