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Page 1
Luminal breast epithelial cells from wildtype and BRCA mutation carriers harbor copy number alterations commonly associated with breast cancer.
Williams MJ, Oliphant MU, Au V, Liu C, Baril C, O'Flanagan C, Lai D, Beatty S, Van Vliet M, Yiu JC, O'Connor L, Goh WL, Pollaci A, Weiner AC, Grewal D, McPherson A, Moore M, Prabhakar V, Agarwal S, Garber JE, Dillon D, Shah SP, Brugge J, Aparicio S. Williams MJ, et al. Among authors: mcpherson a. bioRxiv [Preprint]. 2024 May 3:2024.05.01.591587. doi: 10.1101/2024.05.01.591587. bioRxiv. 2024. Update in: Nat Genet. 2024 Dec;56(12):2753-2762. doi: 10.1038/s41588-024-01988-0 PMID: 38746396 Free PMC article. Updated. Preprint.
clonealign: statistical integration of independent single-cell RNA and DNA sequencing data from human cancers.
Campbell KR, Steif A, Laks E, Zahn H, Lai D, McPherson A, Farahani H, Kabeer F, O'Flanagan C, Biele J, Brimhall J, Wang B, Walters P; IMAXT Consortium; Bouchard-Côté A, Aparicio S, Shah SP. Campbell KR, et al. Among authors: mcpherson a. Genome Biol. 2019 Mar 12;20(1):54. doi: 10.1186/s13059-019-1645-z. Genome Biol. 2019. PMID: 30866997 Free PMC article.
Dissociation of solid tumor tissues with cold active protease for single-cell RNA-seq minimizes conserved collagenase-associated stress responses.
O'Flanagan CH, Campbell KR, Zhang AW, Kabeer F, Lim JLP, Biele J, Eirew P, Lai D, McPherson A, Kong E, Bates C, Borkowski K, Wiens M, Hewitson B, Hopkins J, Pham J, Ceglia N, Moore R, Mungall AJ, McAlpine JN; CRUK IMAXT Grand Challenge Team; Shah SP, Aparicio S. O'Flanagan CH, et al. Among authors: mcpherson a. Genome Biol. 2019 Oct 17;20(1):210. doi: 10.1186/s13059-019-1830-0. Genome Biol. 2019. PMID: 31623682 Free PMC article.
Clonal fitness inferred from time-series modelling of single-cell cancer genomes.
Salehi S, Kabeer F, Ceglia N, Andronescu M, Williams MJ, Campbell KR, Masud T, Wang B, Biele J, Brimhall J, Gee D, Lee H, Ting J, Zhang AW, Tran H, O'Flanagan C, Dorri F, Rusk N, de Algara TR, Lee SR, Cheng BYC, Eirew P, Kono T, Pham J, Grewal D, Lai D, Moore R, Mungall AJ, Marra MA; IMAXT Consortium; McPherson A, Bouchard-Côté A, Aparicio S, Shah SP. Salehi S, et al. Among authors: mcpherson a. Nature. 2021 Jul;595(7868):585-590. doi: 10.1038/s41586-021-03648-3. Epub 2021 Jun 23. Nature. 2021. PMID: 34163070 Free PMC article.
Single-cell genomic variation induced by mutational processes in cancer.
Funnell T, O'Flanagan CH, Williams MJ, McPherson A, McKinney S, Kabeer F, Lee H, Salehi S, Vázquez-García I, Shi H, Leventhal E, Masud T, Eirew P, Yap D, Zhang AW, Lim JLP, Wang B, Brimhall J, Biele J, Ting J, Au V, Van Vliet M, Liu YF, Beatty S, Lai D, Pham J, Grewal D, Abrams D, Havasov E, Leung S, Bojilova V, Moore RA, Rusk N, Uhlitz F, Ceglia N, Weiner AC, Zaikova E, Douglas JM, Zamarin D, Weigelt B, Kim SH, Da Cruz Paula A, Reis-Filho JS, Martin SD, Li Y, Xu H, de Algara TR, Lee SR, Llanos VC, Huntsman DG, McAlpine JN; IMAXT Consortium; Shah SP, Aparicio S. Funnell T, et al. Among authors: mcpherson a. Nature. 2022 Dec;612(7938):106-115. doi: 10.1038/s41586-022-05249-0. Epub 2022 Oct 26. Nature. 2022. PMID: 36289342 Free PMC article.
Exploiting allele-specific transcriptional effects of subclonal copy number alterations for genotype-phenotype mapping in cancer cell populations.
Shi H, Williams MJ, Satas G, Weiner AC, McPherson A, Shah SP. Shi H, et al. Among authors: mcpherson a. bioRxiv [Preprint]. 2023 Jan 17:2023.01.10.523464. doi: 10.1101/2023.01.10.523464. bioRxiv. 2023. Update in: Nat Commun. 2024 Mar 20;15(1):2482. doi: 10.1038/s41467-024-46710-0 PMID: 36711951 Free PMC article. Updated. Preprint.
Single-cell DNA replication dynamics in genomically unstable cancers.
Weiner AC, Williams MJ, Shi H, Vázquez-García I, Salehi S, Rusk N, Aparicio S, Shah SP, McPherson A. Weiner AC, et al. Among authors: mcpherson a. bioRxiv [Preprint]. 2023 Sep 23:2023.04.10.536250. doi: 10.1101/2023.04.10.536250. bioRxiv. 2023. PMID: 37090647 Free PMC article. Preprint.
754 results