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Article

Next-Generation Sequencing Analysis of Pancreatic Cancer Using Residual Liquid Cytology Specimens from Endoscopic Ultrasound—Guided Fine-Needle Biopsy: A Prospective Comparative Study with Tissue Specimens

by
Hiromichi Iwaya
1,2,
Akihide Tanimoto
3,*,
Koshiro Toyodome
1,
Issei Kojima
1,
Makoto Hinokuchi
1,
Shiroh Tanoue
1,
Shinichi Hashimoto
1,
Machiko Kawahira
1,
Shiho Arima
1,
Shuji Kanmura
1,
Toshiaki Akahane
3,
Michiyo Higashi
3,
Shinsuke Suzuki
4,
Shinichi Ueno
4,
Takao Ohtsuka
5 and
Akio Ido
1
1
Digestive and Lifestyle Diseases, Graduate School of Medical and Dental Sciences, Kagoshima University, 8-35-1 Sakuragaoka, Kagoshima 890-8520, Japan
2
Iwaya Internal Medicine and Endoscopy Clinic, 1-16-3 Arata, Kagoshima 890-0054, Japan
3
Center for Human Genome and Gene Analysis, Graduate School of Medical and Dental Sciences, Kagoshima University, 8-35-1 Sakuragaoka, Kagoshima 890-8544, Japan
4
Department of Clinical Cancer Research, Graduate School of Medical and Dental Sciences, Kagoshima University, 8-35-1 Sakuragaoka, Kagoshima 890-8544, Japan
5
Department of Digestive Surgery, Breast and Thyroid Surgery, Graduate School of Medical and Dental Sciences, Kagoshima University, 8-35-1 Sakuragaoka, Kagoshima 890-8544, Japan
*
Author to whom correspondence should be addressed.
Diagnostics 2023, 13(6), 1078; https://doi.org/10.3390/diagnostics13061078
Submission received: 16 February 2023 / Revised: 3 March 2023 / Accepted: 9 March 2023 / Published: 13 March 2023
(This article belongs to the Section Biomedical Optics)
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Abstract

This study evaluated the feasibility and clinical utility of liquid-based cytology (LBC) specimens via endoscopic ultrasound–guided fine-needle biopsy (EUS-FNB) for next-generation sequencing (NGS) of pancreatic cancer (PC). We prospectively evaluated the performance of DNA extraction and NGS using EUS-FNB samples obtained from PC. Thirty-three consecutive patients with PC who underwent EUS-FNB at our hospital were enrolled. DNA samples were obtained from 96.8% of the patients. When stratified with a variant allele frequency (VAF) > 10% tumor burden, the NGS success rate was 76.7% (n = 23) in formalin-fixed paraffin-embedded (FFPE), 83.3% (n = 25) in LBC, and 76.7% (n = 23) in frozen samples. The overall NGS success rate was 86.7% (n = 26) using FFPE, LBC, or frozen samples. The detection rates for the main mutated genes were as follows: 86.7% for KRAS, 73.3% for TP53, 66.7% for CDKN2A, 36.7% for SMAD4, and 16.7% for ARID1A. LBC had the highest median value of VAF (23.5%) for KRAS and TP53. PC mutation analysis using NGS was successfully performed using LBC compared with FFPE and frozen samples. This approach provides an alternative and affordable source of molecular testing materials.
Keywords: cancer panel; endoscopic ultrasound–guided fine-needle aspiration; next-generation sequencing; pancreatic cancer cancer panel; endoscopic ultrasound–guided fine-needle aspiration; next-generation sequencing; pancreatic cancer

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MDPI and ACS Style

Iwaya, H.; Tanimoto, A.; Toyodome, K.; Kojima, I.; Hinokuchi, M.; Tanoue, S.; Hashimoto, S.; Kawahira, M.; Arima, S.; Kanmura, S.; et al. Next-Generation Sequencing Analysis of Pancreatic Cancer Using Residual Liquid Cytology Specimens from Endoscopic Ultrasound—Guided Fine-Needle Biopsy: A Prospective Comparative Study with Tissue Specimens. Diagnostics 2023, 13, 1078. https://doi.org/10.3390/diagnostics13061078

AMA Style

Iwaya H, Tanimoto A, Toyodome K, Kojima I, Hinokuchi M, Tanoue S, Hashimoto S, Kawahira M, Arima S, Kanmura S, et al. Next-Generation Sequencing Analysis of Pancreatic Cancer Using Residual Liquid Cytology Specimens from Endoscopic Ultrasound—Guided Fine-Needle Biopsy: A Prospective Comparative Study with Tissue Specimens. Diagnostics. 2023; 13(6):1078. https://doi.org/10.3390/diagnostics13061078

Chicago/Turabian Style

Iwaya, Hiromichi, Akihide Tanimoto, Koshiro Toyodome, Issei Kojima, Makoto Hinokuchi, Shiroh Tanoue, Shinichi Hashimoto, Machiko Kawahira, Shiho Arima, Shuji Kanmura, and et al. 2023. "Next-Generation Sequencing Analysis of Pancreatic Cancer Using Residual Liquid Cytology Specimens from Endoscopic Ultrasound—Guided Fine-Needle Biopsy: A Prospective Comparative Study with Tissue Specimens" Diagnostics 13, no. 6: 1078. https://doi.org/10.3390/diagnostics13061078

APA Style

Iwaya, H., Tanimoto, A., Toyodome, K., Kojima, I., Hinokuchi, M., Tanoue, S., Hashimoto, S., Kawahira, M., Arima, S., Kanmura, S., Akahane, T., Higashi, M., Suzuki, S., Ueno, S., Ohtsuka, T., & Ido, A. (2023). Next-Generation Sequencing Analysis of Pancreatic Cancer Using Residual Liquid Cytology Specimens from Endoscopic Ultrasound—Guided Fine-Needle Biopsy: A Prospective Comparative Study with Tissue Specimens. Diagnostics, 13(6), 1078. https://doi.org/10.3390/diagnostics13061078

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