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Page 1
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: alexandrov lb. bioRxiv [Preprint]. 2023 Dec 13:2023.12.12.571349. doi: 10.1101/2023.12.12.571349. bioRxiv. 2023. PMID: 38168210 Free PMC article. Preprint.
Mapping clustered mutations in cancer reveals APOBEC3 mutagenesis of ecDNA.
Bergstrom EN, Luebeck J, Petljak M, Khandekar A, Barnes M, Zhang T, Steele CD, Pillay N, Landi MT, Bafna V, Mischel PS, Harris RS, Alexandrov LB. Bergstrom EN, et al. Among authors: alexandrov lb. Nature. 2022 Feb;602(7897):510-517. doi: 10.1038/s41586-022-04398-6. Epub 2022 Feb 9. Nature. 2022. PMID: 35140399 Free PMC article.
Human cancer genomes harbor the mutational signature of tobacco-specific nitrosamines NNN and NNK.
Korenjak M, Temiz NA, Keita S, Chavanel B, Renard C, Sirand C, Cahais V, Mayel T, Vevang KR, Jacobs FC, Guo J, Smith WE, Oram MK, Tăbăran FA, Ahlat O, Cornax I, O'Sullivan MG, Das S, Nandi SP, Cheng Y, Alexandrov LB, Balbo S, Hecht SS, Senkin S, Virard F, Peterson LA, Zavadil J. Korenjak M, et al. Among authors: alexandrov lb. bioRxiv [Preprint]. 2024 Jun 28:2024.06.28.600253. doi: 10.1101/2024.06.28.600253. bioRxiv. 2024. PMID: 38979250 Free PMC article. Preprint.
Assigning mutational signatures to individual samples and individual somatic mutations with SigProfilerAssignment.
Díaz-Gay M, Vangara R, Barnes M, Wang X, Islam SMA, Vermes I, Narasimman NB, Yang T, Jiang Z, Moody S, Senkin S, Brennan P, Stratton MR, Alexandrov LB. Díaz-Gay M, et al. Among authors: alexandrov lb. bioRxiv [Preprint]. 2023 Jul 11:2023.07.10.548264. doi: 10.1101/2023.07.10.548264. bioRxiv. 2023. Update in: Bioinformatics. 2023 Dec 1;39(12):btad756. doi: 10.1093/bioinformatics/btad756 PMID: 37502962 Free PMC article. Updated. Preprint.
Visualizing and exploring patterns of large mutational events with SigProfilerMatrixGenerator.
Khandekar A, Vangara R, Barnes M, Díaz-Gay M, Abbasi A, Bergstrom EN, Steele CD, Pillay N, Alexandrov LB. Khandekar A, et al. Among authors: alexandrov lb. bioRxiv [Preprint]. 2023 Feb 4:2023.02.03.527015. doi: 10.1101/2023.02.03.527015. bioRxiv. 2023. Update in: BMC Genomics. 2023 Aug 21;24(1):469. doi: 10.1186/s12864-023-09584-y PMID: 36778452 Free PMC article. Updated. Preprint.
Enhanced precision in immunotherapy.
Bergstrom EN, Alexandrov LB. Bergstrom EN, et al. Among authors: alexandrov lb. Nat Cancer. 2024 Aug;5(8):1136-1138. doi: 10.1038/s43018-024-00802-4. Nat Cancer. 2024. PMID: 39134713 No abstract available.
Signatures of copy number alterations in human cancer.
Steele CD, Abbasi A, Islam SMA, Bowes AL, Khandekar A, Haase K, Hames-Fathi S, Ajayi D, Verfaillie A, Dhami P, McLatchie A, Lechner M, Light N, Shlien A, Malkin D, Feber A, Proszek P, Lesluyes T, Mertens F, Flanagan AM, Tarabichi M, Van Loo P, Alexandrov LB, Pillay N. Steele CD, et al. Among authors: alexandrov lb. Nature. 2022 Jun;606(7916):984-991. doi: 10.1038/s41586-022-04738-6. Epub 2022 Jun 15. Nature. 2022. PMID: 35705804 Free PMC article.
213 results