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Comprehensive tissue deconvolution of cell-free DNA by deep learning for disease diagnosis and monitoring. Proc Natl Acad Sci USA. 2023 Jul;120(28):e2305236120.
Li S, Zeng W, Ni X, Liu Q, Li W, Stackpole ML, Zhou Y, Gower A, Krysan K, Ahuja P, Lu DS, Raman SS, Hsu W, Aberle DR, Magyar CE, French S, Han SHB, Garon EB, Agopian VG, Wong WH#, Dubinett SM#, Zhou XJ# (2023). #Joint corresponding author.
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cfSNV: a software tool for the sensitive detection of somatic mutations from cell-free DNA. Nature Protocol. 2023 Feb 27. doi: 10.1038/s41596-023-00807-w.
Li S, Hu R, Small C, Kang TY, Liu CC, Zhou XJ#, Li W# (2023). #Joint corresponding author.
Cost-effective methylome sequencing of cell-free DNA for accurately detecting and locating cancer. Nature Communications 2022 Sep 29; 13:5566
Stackpole M.L., Zeng W., Li S. et al. (2022).
cfTrack: Exome-wide mutation analysis of cell-free DNA to simultaneously monitor the full spectrum of cancer treatment outcomes: MRD, recurrence, and evolution. Clinical Cancer Research. 2022 Feb 11; doi: 10.1158/1078-0432.CCR-21-1242.
Li S, Zeng W, Ni X, Zhou Y, Stackpole ML, Noor ZS, Yuan Z, Neal A, Memarzadeh S, Garon EB, Dubinett SM, Li W, Zhou XJ (2022).
Sensitive detection of tumor mutations from blood and its application to immunotherapy prognosis. Nature Communications 2021 Jul 7;12(1):4172.
Li S, Noor Z, Zeng W, Stackpole M, Ni X, Yuan Z, Yuan Z, Wong WH, Agopian VG, Dubinett SM, Alber F, Li W, Garon EB, Zhou XJ (2021).
Cell-free DNA methylation and transcriptomic signature prediction of pregnancies with adverse outcomes. Epigenetics, 2020 Oct 13:1-20; doi: 10.1080/15592294.2020.1816774.
Del Vecchio G*, Li Q*, Li W*, Thamotharan S, Tosevska A, Morselli M, Sung K, Janzen C, Zhou X, Pellegrini M, Devaskar SU (2020). *Joint first author.
Rapid diagnosis and comprehensive bacteria profiling of sepsis based on cell-free DNA. J Transl Med, 2019 18(1):5. doi: 10.1186/s12967-019-02186-x.
Chen P*, Li S*, Li W, Ren J, Sun F, Liu R#, Zhou XJ# (2019). *Joint first author; #Joint corresponding author.
CancerDetector: Ultrasensitive and non-invasive cancer detection at the resolution of individual reads using cell-free DNA methylation sequencing data. Nucleic Acid Research, 2018 Sep;46(15):e89.
Li W*, Li Q*, Kang S, Same M, Zhou Y, Sun C, Liu CC, Matsuoka L, Sher L, Wong WH, Alber F and Zhou XJ (2018).
CancerLocator: Non-invasive cancer diagnosis and tissue-of-origin prediction using methylation profiles of cell-free DNA. Genome Biology, 2017 Mar 24;18(1):53.
Kang S, Li Q, Chen Q, Zhou Y, Park S, Lee G, Grimes, B, Krysan K, Yu M, Wang W, Alber F, Sun F, Dubinett SM, Li W, Zhou XJ (2017).