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Fragmentation landscape of cell-free DNA revealed by deconvolutional analysis of end motifs.
Zhou Z, Ma ML, Chan RWY, Lam WKJ, Peng W, Gai W, Hu X, Ding SC, Ji L, Zhou Q, Cheung PPH, Yu SCY, Teoh JYC, Szeto CC, Wong J, Wong VWS, Wong GLH, Chan SL, Hui EP, Ma BBY, Chan ATC, Chiu RWK, Chan KCA, Lo YMD, Jiang P. Zhou Z, et al. Among authors: zhou q. Proc Natl Acad Sci U S A. 2023 Apr 25;120(17):e2220982120. doi: 10.1073/pnas.2220982120. Epub 2023 Apr 19. Proc Natl Acad Sci U S A. 2023. PMID: 37075072 Free PMC article.
Epigenetic analysis of cell-free DNA by fragmentomic profiling.
Zhou Q, Kang G, Jiang P, Qiao R, Lam WKJ, Yu SCY, Ma ML, Ji L, Cheng SH, Gai W, Peng W, Shang H, Chan RWY, Chan SL, Wong GLH, Hiraki LT, Volpi S, Wong VWS, Wong J, Chiu RWK, Chan KCA, Lo YMD. Zhou Q, et al. Proc Natl Acad Sci U S A. 2022 Nov;119(44):e2209852119. doi: 10.1073/pnas.2209852119. Epub 2022 Oct 26. Proc Natl Acad Sci U S A. 2022. PMID: 36288287 Free PMC article.
Histone modifications of circulating nucleosomes are associated with changes in cell-free DNA fragmentation patterns.
Bai J, Jiang P, Ji L, Lam WKJ, Zhou Q, Ma ML, Ding SC, Ramakrishnan S, Wan CW, Yang TC, Yukawa M, Chan RWY, Qiao R, Yu SCY, Choy LYL, Shi Y, Wang Z, Tam THC, Law MF, Wong RSM, Wong J, Chan SL, Wong GLH, Wong VWS, Chan KCA, Lo YMD. Bai J, et al. Among authors: zhou q. Proc Natl Acad Sci U S A. 2024 Oct 15;121(42):e2404058121. doi: 10.1073/pnas.2404058121. Epub 2024 Oct 9. Proc Natl Acad Sci U S A. 2024. PMID: 39382996 Free PMC article.
Analysis of a cell-free DNA-based cancer screening cohort links fragmentomic profiles, nuclease levels, and plasma DNA concentrations.
Malki Y, Kang G, Lam WKJ, Zhou Q, Cheng SH, Cheung PPH, Bai J, Chan ML, Lee CT, Peng W, Zhang Y, Gai W, Wong WWS, Ma ML, Li W, Xu X, Gao Z, Tse IOL, Shang H, Choy LYL, Jiang P, Chan KCA, Lo YMD. Malki Y, et al. Among authors: zhou q. Genome Res. 2025 Jan 10. doi: 10.1101/gr.279667.124. Online ahead of print. Genome Res. 2025. PMID: 39603706 Free article.
Inference of transcription factor binding from cell-free DNA enables tumor subtype prediction and early detection.
Ulz P, Perakis S, Zhou Q, Moser T, Belic J, Lazzeri I, Wölfler A, Zebisch A, Gerger A, Pristauz G, Petru E, White B, Roberts CES, John JS, Schimek MG, Geigl JB, Bauernhofer T, Sill H, Bock C, Heitzer E, Speicher MR. Ulz P, et al. Among authors: zhou q. Nat Commun. 2019 Oct 11;10(1):4666. doi: 10.1038/s41467-019-12714-4. Nat Commun. 2019. PMID: 31604930 Free PMC article.
Persistence of ctDNA in Patients with Breast Cancer During Neoadjuvant Treatment Is a Significant Predictor of Poor Tumor Response.
Zhou Q, Gampenrieder SP, Frantal S, Rinnerthaler G, Singer CF, Egle D, Pfeiler G, Bartsch R, Wette V, Pichler A, Petru E, Dubsky PC, Bago-Horvath Z, Fesl C, Rudas M, Ståhlberg A, Graf R, Weber S, Dandachi N, Filipits M, Gnant M, Balic M, Heitzer E. Zhou Q, et al. Clin Cancer Res. 2022 Feb 15;28(4):697-707. doi: 10.1158/1078-0432.CCR-21-3231. Clin Cancer Res. 2022. PMID: 34862246 Free PMC article.
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