Plasma DNA motif analysis - EGA European Genome-Phenome Archive

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID	Description	Technology	Samples
EGAD00001005093	None	Illumina HiSeq 4000	118

Publications	Citations
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. Proc Natl Acad Sci U S A 119: 2022 e2209852119	31
A novel approach for the non-invasive diagnosis of pulmonary nodules using low-depth whole-genome sequencing of cell-free DNA. Zhang B, Liang H, Liu W, Zhou X, Qiao S, Li F, Tian P, Li C, Ma Y, Zhang H, Zhang Z, Nanjo S, Russo A, Puig-Butillé JA, Wu K, Wang C, Zhao X, Yue D. Transl Lung Cancer Res 11: 2022 2094-2110	1
Detecting Liver Cancer Using Cell-Free DNA Fragmentomes. Foda ZH, Annapragada AV, Boyapati K, Bruhm DC, Vulpescu NA, Medina JE, Mathios D, Cristiano S, Niknafs N, Luu HT, Goggins MG, Anders RA, Sun J, Meta SH, Thomas DL, Kirk GD, Adleff V, Phallen J, Scharpf RB, Kim AK, Velculescu VE. Cancer Discov 13: 2023 616-631	39
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. Proc Natl Acad Sci U S A 120: 2023 e2220982120	17
Language model enables end-to-end accurate detection of cancer from cell-free DNA. Shen H, Liu J, Chen K, Li X. Brief Bioinform 25: 2024 bbae053	0
Development of a deep learning model for cancer diagnosis by inspecting cell-free DNA end-motifs. Shen H, Yang M, Liu J, Chen K, Li X. NPJ Precis Oncol 8: 2024 160	1
Large language model produces high accurate diagnosis of cancer from end-motif profiles of cell-free DNA. Liu J, Shen H, Chen K, Li X. Brief Bioinform 25: 2024 bbae430	2