Systematic evaluation of methylation-based cell type deconvolution methods for plasma cell-free DNA
Based on the benchmark results, we propose general guidelines to choose the suitable methods based on sequencing depth of the cfDNA data and completeness of the reference atlas to maximize the performance of methylation-based cfDNA cell type deconvolution.
Authors
- Jingyi Jessica Li (ORCID: https://orcid.org/0000-0002-9288-5648)
- Jingqi Li (ORCID: https://orcid.org/0009-0008-3532-1249)
- Susu Qu
- Xinzhou Ge (ORCID: https://orcid.org/0000-0002-8229-5716)
- Wei Li (ORCID: https://orcid.org/0000-0001-9931-5990)
- Yumei Li (ORCID: https://orcid.org/0000-0002-7910-6515)
- Yacheng Zhu
- Junpeng Zhou
- Tongyue Sun
- Jinqi Yuan
- Yang Shen (ORCID: https://orcid.org/0000-0003-4714-0839)
Institutions
- Oregon State University (US)
- University of California, Los Angeles (US)
- University of California, Irvine (US)
- Soochow University (CN)
- Chinese Institute for Brain Research (CN)
Publication Details
- Journal
- Genome biology
- Published
- 2024-12-19
- DOI
- https://doi.org/10.1186/s13059-024-03456-8
- Citations
- 7
- Primary Topic
- Cancer Genomics and Diagnostics
- Type
- article
- Field-Weighted Citation Impact
- 2.00
Funders
- National Natural Science Foundation of China
- Government of Jiangsu Province
- Natural Science Foundation of Jiangsu Province
- Soochow University