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Pathway level subtyping identifies a slow-cycling biological phenotype associated with poor clinical outcomes in colorectal cancer.
Malla SB, Byrne RM, Lafarge MW, Corry SM, Fisher NC, Tsantoulis PK, Mills ML, Ridgway RA, Lannagan TRM, Najumudeen AK, Gilroy KL, Amirkhah R, Maguire SL, Mulholland EJ, Belnoue-Davis HL, Grassi E, Viviani M, Rogan E, Redmond KL, Sakhnevych S, McCooey AJ, Bull C, Hoey E, Sinevici N, Hall H, Ahmaderaghi B, Domingo E, Blake A, Richman SD, Isella C, Miller C, Bertotti A, Trusolino L, Loughrey MB, Kerr EM, Tejpar S, Maughan TS, Lawler M, Campbell AD, Leedham SJ, Koelzer VH, Sansom OJ, Dunne PD. Malla SB, et al. Among authors: ahmaderaghi b. Nat Genet. 2024 Mar;56(3):458-472. doi: 10.1038/s41588-024-01654-5. Epub 2024 Feb 13. Nat Genet. 2024. PMID: 38351382 Free PMC article.
surviveR: a flexible shiny application for patient survival analysis.
Sessler T, Quinn GP, Wappett M, Rogan E, Sharkey D, Ahmaderaghi B, Lawler M, Longley DB, McDade SS. Sessler T, et al. Among authors: ahmaderaghi b. Sci Rep. 2023 Dec 13;13(1):22093. doi: 10.1038/s41598-023-48894-9. Sci Rep. 2023. PMID: 38086891 Free PMC article.
MmCMS: mouse models' consensus molecular subtypes of colorectal cancer.
Amirkhah R, Gilroy K, Malla SB, Lannagan TRM, Byrne RM, Fisher NC, Corry SM, Mohamed NE, Naderi-Meshkin H, Mills ML, Campbell AD, Ridgway RA, Ahmaderaghi B, Murray R, Llergo AB, Sanz-Pamplona R, Villanueva A, Batlle E, Salazar R, Lawler M, Sansom OJ, Dunne PD. Amirkhah R, et al. Among authors: ahmaderaghi b. Br J Cancer. 2023 Mar;128(7):1333-1343. doi: 10.1038/s41416-023-02157-6. Epub 2023 Jan 30. Br J Cancer. 2023. PMID: 36717674 Free PMC article.
Biological Misinterpretation of Transcriptional Signatures in Tumor Samples Can Unknowingly Undermine Mechanistic Understanding and Faithful Alignment with Preclinical Data.
Fisher NC, Byrne RM, Leslie H, Wood C, Legrini A, Cameron AJ, Ahmaderaghi B, Corry SM, Malla SB, Amirkhah R, McCooey AJ, Rogan E, Redmond KL, Sakhnevych S, Domingo E, Jackson J, Loughrey MB, Leedham S, Maughan T, Lawler M, Sansom OJ, Lamrock F, Koelzer VH, Jamieson NB, Dunne PD. Fisher NC, et al. Among authors: ahmaderaghi b. Clin Cancer Res. 2022 Sep 15;28(18):4056-4069. doi: 10.1158/1078-0432.CCR-22-1102. Clin Cancer Res. 2022. PMID: 35792866 Free PMC article.
Molecular Subtyping Resource: a user-friendly tool for rapid biological discovery from transcriptional data.
Ahmaderaghi B, Amirkhah R, Jackson J, Lannagan TRM, Gilroy K, Malla SB, Redmond KL, Quinn G, McDade SS, ACRCelerate Consortium, Maughan T, Leedham S, Campbell ASD, Sansom OJ, Lawler M, Dunne PD. Ahmaderaghi B, et al. Dis Model Mech. 2022 Mar 1;15(3):dmm049257. doi: 10.1242/dmm.049257. Epub 2022 Mar 30. Dis Model Mech. 2022. PMID: 35112706 Free PMC article.