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Co-evolution of AR gene copy number and structural complexity in endocrine therapy resistant prostate cancer.
Zivanovic A, Miller JT, Munro SA, Knutson TP, Li Y, Passow CN, Simonaitis P, Lynch M, Oseth L, Zhao SG, Feng FY, Wikström P, Corey E, Morrissey C, Henzler C, Raphael BJ, Dehm SM. Zivanovic A, et al. Among authors: raphael bj. NAR Cancer. 2023 Aug 24;5(3):zcad045. doi: 10.1093/narcan/zcad045. eCollection 2023 Sep. NAR Cancer. 2023. PMID: 37636316 Free PMC article.
Inferring structural variant cancer cell fraction.
Cmero M, Yuan K, Ong CS, Schröder J; PCAWG Evolution and Heterogeneity Working Group; Corcoran NM, Papenfuss T, Hovens CM, Markowetz F, Macintyre G; PCAWG Consortium. Cmero M, et al. Nat Commun. 2020 Feb 5;11(1):730. doi: 10.1038/s41467-020-14351-8. Nat Commun. 2020. PMID: 32024845 Free PMC article.
DeST-OT: Alignment of Spatiotemporal Transcriptomics Data.
Halmos P, Liu X, Gold J, Chen F, Ding L, Raphael BJ. Halmos P, et al. Among authors: raphael bj. bioRxiv [Preprint]. 2024 Mar 10:2024.03.05.583575. doi: 10.1101/2024.03.05.583575. bioRxiv. 2024. PMID: 38496660 Free PMC article. Preprint.
A zero-agnostic model for copy number evolution in cancer.
Schmidt H, Sashittal P, Raphael BJ. Schmidt H, et al. Among authors: raphael bj. PLoS Comput Biol. 2023 Nov 9;19(11):e1011590. doi: 10.1371/journal.pcbi.1011590. eCollection 2023 Nov. PLoS Comput Biol. 2023. PMID: 37943952 Free PMC article.
Epigenetic regulation during cancer transitions across 11 tumour types.
Terekhanova NV, Karpova A, Liang WW, Strzalkowski A, Chen S, Li Y, Southard-Smith AN, Iglesia MD, Wendl MC, Jayasinghe RG, Liu J, Song Y, Cao S, Houston A, Liu X, Wyczalkowski MA, Lu RJ, Caravan W, Shinkle A, Naser Al Deen N, Herndon JM, Mudd J, Ma C, Sarkar H, Sato K, Ibrahim OM, Mo CK, Chasnoff SE, Porta-Pardo E, Held JM, Pachynski R, Schwarz JK, Gillanders WE, Kim AH, Vij R, DiPersio JF, Puram SV, Chheda MG, Fuh KC, DeNardo DG, Fields RC, Chen F, Raphael BJ, Ding L. Terekhanova NV, et al. Among authors: raphael bj. Nature. 2023 Nov;623(7986):432-441. doi: 10.1038/s41586-023-06682-5. Epub 2023 Nov 1. Nature. 2023. PMID: 37914932 Free PMC article.
187 results