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Breakage fusion bridge cycles drive high oncogene copy number, but not intratumoral genetic heterogeneity or rapid cancer genome change.
Dehkordi SR, Wong IT, Ni J, Luebeck J, Zhu K, Prasad G, Krockenberger L, Xu G, Chowdhury B, Rajkumar U, Caplin A, Muliaditan D, Coruh C, Jin Q, Turner K, Teo SX, Pang AWC, Alexandrov LB, Chua CEL, Furnari FB, Paulson TG, Law JA, Chang HY, Yue F, DasGupta R, Zhao J, Mischel PS, Bafna V. Dehkordi SR, et al. Among authors: chang hy. bioRxiv [Preprint]. 2023 Dec 13:2023.12.12.571349. doi: 10.1101/2023.12.12.571349. bioRxiv. 2023. PMID: 38168210 Free PMC article. Preprint.
Coordinated inheritance of extrachromosomal DNA species in human cancer cells.
Hung KL, Jones MG, Wong IT, Lange JT, Luebeck J, Scanu E, He BJ, Brückner L, Li R, González RC, Schmargon R, Dörr JR, Belk JA, Bafna V, Werner B, Huang W, Henssen AG, Mischel PS, Chang HY. Hung KL, et al. Among authors: chang hy. bioRxiv [Preprint]. 2023 Jul 19:2023.07.18.549597. doi: 10.1101/2023.07.18.549597. bioRxiv. 2023. Update in: Nature. 2024 Nov;635(8037):201-209. doi: 10.1038/s41586-024-07861-8 PMID: 37503111 Free PMC article. Updated. Preprint.
CoRAL accurately resolves extrachromosomal DNA genome structures with long-read sequencing.
Zhu K, Jones MG, Luebeck J, Bu X, Yi H, Hung KL, Wong IT, Zhang S, Mischel PS, Chang HY, Bafna V. Zhu K, et al. Among authors: chang hy. bioRxiv [Preprint]. 2024 May 18:2024.02.15.580594. doi: 10.1101/2024.02.15.580594. bioRxiv. 2024. Update in: Genome Res. 2024 Oct 11;34(9):1344-1354. doi: 10.1101/gr.279131.124 PMID: 38405779 Free PMC article. Updated. Preprint.
Enhancer activation from transposable elements in extrachromosomal DNA.
Kraft K, Murphy SE, Jones MG, Shi Q, Bhargava-Shah A, Luong C, Hung KL, He BJ, Li R, Park SK, Weiser NE, Luebeck J, Bafna V, Boeke JD, Mischel PS, Boettiger AN, Chang HY. Kraft K, et al. Among authors: chang hy. bioRxiv [Preprint]. 2024 Sep 8:2024.09.04.611262. doi: 10.1101/2024.09.04.611262. bioRxiv. 2024. PMID: 39282372 Free PMC article. Preprint.
Extrachromosomal DNA driven oncogene spatial heterogeneity and evolution in glioblastoma.
Noorani I, Haughey M, Luebeck J, Rowan A, Grönroos E, Terenzi F, Wong IT, Kittel J, Bailey C, Weeden C, Bell D, Joo E, Barbe V, Jones MG, Nye E, Green M, Meader L, Norton EJ, Fabian M, Kanu N, Jamal-Hanjani M, Santarius T, Nicoll J, Boche D, Chang HY, Bafna V, Huang W, Mischel PS, Swanton C, Werner B. Noorani I, et al. Among authors: chang hy. bioRxiv [Preprint]. 2024 Oct 25:2024.10.22.619657. doi: 10.1101/2024.10.22.619657. bioRxiv. 2024. PMID: 39484416 Free PMC article. Preprint.
A STAG2-PAXIP1/PAGR1 axis suppresses lung tumorigenesis.
Ashkin EL, Tang YJ, Xu H, Hung KL, Belk J, Cai H, Lopez S, Dolcen DN, Hebert JD, Li R, Ruiz PA, Keal T, Andrejka L, Chang HY, Petrov DA, Dixon JR, Xu Z, Winslow MM. Ashkin EL, et al. Among authors: chang hy. bioRxiv [Preprint]. 2024 Sep 19:2024.09.14.613043. doi: 10.1101/2024.09.14.613043. bioRxiv. 2024. Update in: J Exp Med. 2025 Jan 6;222(1):e20240765. doi: 10.1084/jem.20240765 PMID: 39345539 Free PMC article. Updated. Preprint.
2,180 results