1. LABS: linear amplification-based bisulfite sequencing for ultrasensitive cancer detection from cell-free DNA
- Author
-
Xiao-Long Cui, Ji Nie, Houxiang Zhu, Krissana Kowitwanich, Alana V. Beadell, Diana C. West-Szymanski, Zhou Zhang, Urszula Dougherty, Akushika Kwesi, Zifeng Deng, Yan Li, Danqing Meng, Kevin Roggin, Teresa Barry, Ryan Owyang, Ben Fefferman, Chang Zeng, Lu Gao, Carolyn W. T. Zhao, Yuri Malina, Jiangbo Wei, Melanie Weigert, Wenjun Kang, Ajay Goel, Brian C.-H. Chiu, Marc Bissonnette, Wei Zhang, Mengjie Chen, and Chuan He
- Subjects
Linear amplification ,Bisulfite sequencing ,Low-input DNA ,Cell-free DNA ,Cancer detection ,Biology (General) ,QH301-705.5 ,Genetics ,QH426-470 - Abstract
Abstract Methylation-based liquid biopsies show promises in detecting cancer using circulating cell-free DNA; however, current limitations impede clinical application. Most assays necessitate substantial DNA inputs, posing challenges. Additionally, underrepresented tumor DNA fragments may go undetected during exponential amplification steps of traditional sequencing methods. Here, we report linear amplification-based bisulfite sequencing (LABS), enabling linear amplification of bisulfite-treated DNA fragments in a genome-wide, unbiased fashion, detecting cancer abnormalities with sub-nanogram inputs. Applying LABS to 100 patient samples revealed cancer-specific patterns, copy number alterations, and enhanced cancer detection accuracy by identifying tissue-of-origin and immune cell composition.
- Published
- 2024
- Full Text
- View/download PDF