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Biological Misinterpretation of Transcriptional Signatures in Tumor Samples Can Unknowingly Undermine Mechanistic Understanding and Faithful Alignment with Preclinical Data.
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.
Item in Clipboard
classifieR a flexible interactive cloud-application for functional annotation of cancer transcriptomes.
Quinn GP, Sessler T, Ahmaderaghi B, Lambe S, VanSteenhouse H, Lawler M, Wappett M, Seligmann B, Longley DB, McDade SS.
Quinn GP, et al. Among authors: ahmaderaghi b.
BMC Bioinformatics. 2022 Mar 31;23(1):114. doi: 10.1186/s12859-022-04641-x.
BMC Bioinformatics. 2022.
PMID: 35361119
Free PMC article.
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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.
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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.
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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.
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