Application of PCR-based approaches for evaluation of cell-free DNA fragmentation in colorectal cancer

Frontiers in Molecular Biosciences

Molecular Biosciences

Yanina A. Shtykova¹  Dmitry S. Shcherbo²  Yulia V. Zhitnyuk²  Alexandra S. Khromova²  Anastasia P. Koval²  Konstantin A. Blagodatskikh³  Aleksandr A. Alferov⁴  Nikolay E. Kushlinskii⁴ 

[1] Federal Center for Brain and Neurotechnology, Moscow, Russia;Institute of Translational Medicine, Pirogov Russian National Research Medical University, Moscow, Russia;Institute of Translational Medicine, Pirogov Russian National Research Medical University, Moscow, Russia;Center of Genetics and Reproductive Medicine “Genetico”, Moscow, Russia;Laboratory of Clinical Biochemistry, N. N. Blokhin Cancer Research Medical Center of Oncology, Moscow, Russia;

关键词: cell-free DNA;    liquid biopsy;    PCR;    digital droplet PCR;    colorectal cancer;   

DOI  :  10.3389/fmolb.2023.1101179

 received in 2022-11-17, accepted in 2023-03-14,  发布年份 2023

来源: Frontiers

【 摘 要 】

Cell-free DNA (cfDNA) testing is the core of most liquid biopsy assays. In particular, cfDNA fragmentation features could facilitate non-invasive cancer detection due to their interconnection with tumor-specific epigenetic alterations. However, the final cfDNA fragmentation profile in a purified sample is the result of a complex interplay between informative biological and artificial technical factors. In this work, we use ddPCR to study cfDNA lengths in colorectal cancer patients and observe shorter and more variable cfDNA fragments in accessible chromatin loci compared to the densely packed pericentromeric region. We also report a convenient qPCR system suitable for screening cfDNA samples for artificial high molecular weight DNA contamination.

【 授权许可】

Unknown   
Copyright © 2023 Koval, Khromova, Blagodatskikh, Zhitnyuk, Shtykova, Alferov, Kushlinskii and Shcherbo.