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Integrative genomic analysis identifies unique immune environments associated with immunotherapy response in diffuse large B cell lymphoma.
Tumuluru S, Godfrey JK, Cooper A, Yu J, Chen X, MacNabb BW, Venkataraman G, Zha Y, Pelzer B, Song J, Duns G, Sworder BJ, Bolen C, Penuel E, Postovalova E, Kotlov N, Bagaev A, Fowler N, Smith SM, Alizadeh AA, Steidl C, Kline J. Tumuluru S, et al. Among authors: alizadeh aa. bioRxiv [Preprint]. 2024 Apr 5:2024.01.17.576100. doi: 10.1101/2024.01.17.576100. bioRxiv. 2024. PMID: 38328071 Free PMC article. Preprint.
Short Diagnosis-to-Treatment Interval Is Associated With Higher Circulating Tumor DNA Levels in Diffuse Large B-Cell Lymphoma.
Alig S, Macaulay CW, Kurtz DM, Dührsen U, Hüttmann A, Schmitz C, Jin MC, Sworder BJ, Garofalo A, Shahrokh Esfahani M, Nabet BY, Soo J, Scherer F, Craig AFM, Casasnovas O, Westin JR, Gaidano G, Rossi D, Roschewski M, Wilson WH, Meignan M, Diehn M, Alizadeh AA. Alig S, et al. Among authors: alizadeh aa. J Clin Oncol. 2021 Aug 10;39(23):2605-2616. doi: 10.1200/JCO.20.02573. Epub 2021 Apr 28. J Clin Oncol. 2021. PMID: 33909455 Free PMC article.
The landscape of tumor cell states and ecosystems in diffuse large B cell lymphoma.
Steen CB, Luca BA, Esfahani MS, Azizi A, Sworder BJ, Nabet BY, Kurtz DM, Liu CL, Khameneh F, Advani RH, Natkunam Y, Myklebust JH, Diehn M, Gentles AJ, Newman AM, Alizadeh AA. Steen CB, et al. Among authors: alizadeh aa. Cancer Cell. 2021 Oct 11;39(10):1422-1437.e10. doi: 10.1016/j.ccell.2021.08.011. Epub 2021 Sep 30. Cancer Cell. 2021. PMID: 34597589 Free PMC article.
Predicting HLA class II antigen presentation through integrated deep learning.
Chen B, Khodadoust MS, Olsson N, Wagar LE, Fast E, Liu CL, Muftuoglu Y, Sworder BJ, Diehn M, Levy R, Davis MM, Elias JE, Altman RB, Alizadeh AA. Chen B, et al. Among authors: alizadeh aa. Nat Biotechnol. 2019 Nov;37(11):1332-1343. doi: 10.1038/s41587-019-0280-2. Epub 2019 Oct 14. Nat Biotechnol. 2019. PMID: 31611695 Free PMC article.
Determinants of resistance to engineered T cell therapies targeting CD19 in large B cell lymphomas.
Sworder BJ, Kurtz DM, Alig SK, Frank MJ, Shukla N, Garofalo A, Macaulay CW, Shahrokh Esfahani M, Olsen MN, Hamilton J, Hosoya H, Hamilton M, Spiegel JY, Baird JH, Sugio T, Carleton M, Craig AFM, Younes SF, Sahaf B, Sheybani ND, Schroers-Martin JG, Liu CL, Oak JS, Jin MC, Beygi S, Hüttmann A, Hanoun C, Dührsen U, Westin JR, Khodadoust MS, Natkunam Y, Majzner RG, Mackall CL, Diehn M, Miklos DB, Alizadeh AA. Sworder BJ, et al. Among authors: alizadeh aa. Cancer Cell. 2023 Jan 9;41(1):210-225.e5. doi: 10.1016/j.ccell.2022.12.005. Epub 2022 Dec 29. Cancer Cell. 2023. PMID: 36584673 Free PMC article.
Tracing Founder Mutations in Circulating and Tissue-Resident Follicular Lymphoma Precursors.
Schroers-Martin JG, Soo J, Brisou G, Scherer F, Kurtz DM, Sworder BJ, Khodadoust MS, Jin MC, Bru A, Liu CL, Stehr H, Vineis P; EPIC Consortium; Natkunam Y, Teras LR, Song JY, Nadel B, Diehn M, Roulland S, Alizadeh AA. Schroers-Martin JG, et al. Among authors: alizadeh aa. Cancer Discov. 2023 Jun 2;13(6):1310-1323. doi: 10.1158/2159-8290.CD-23-0111. Cancer Discov. 2023. PMID: 36939219 Free PMC article.
Distinct Hodgkin lymphoma subtypes defined by noninvasive genomic profiling.
Alig SK, Shahrokh Esfahani M, Garofalo A, Li MY, Rossi C, Flerlage T, Flerlage JE, Adams R, Binkley MS, Shukla N, Jin MC, Olsen M, Telenius A, Mutter JA, Schroers-Martin JG, Sworder BJ, Rai S, King DA, Schultz A, Bögeholz J, Su S, Kathuria KR, Liu CL, Kang X, Strohband MJ, Langfitt D, Pobre-Piza KF, Surman S, Tian F, Spina V, Tousseyn T, Buedts L, Hoppe R, Natkunam Y, Fornecker LM, Castellino SM, Advani R, Rossi D, Lynch R, Ghesquières H, Casasnovas O, Kurtz DM, Marks LJ, Link MP, André M, Vandenberghe P, Steidl C, Diehn M, Alizadeh AA. Alig SK, et al. Among authors: alizadeh aa. Nature. 2024 Jan;625(7996):778-787. doi: 10.1038/s41586-023-06903-x. Epub 2023 Dec 11. Nature. 2024. PMID: 38081297 Free PMC article.
B-cell lymphomas present immunoglobulin neoantigens.
Khodadoust MS, Olsson N, Chen B, Sworder B, Shree T, Liu CL, Zhang L, Czerwinski DK, Davis MM, Levy R, Elias JE, Alizadeh AA. Khodadoust MS, et al. Among authors: alizadeh aa. Blood. 2019 Feb 21;133(8):878-881. doi: 10.1182/blood-2018-06-845156. Epub 2018 Dec 13. Blood. 2019. PMID: 30545830 Free PMC article. No abstract available.
Inferring gene expression from cell-free DNA fragmentation profiles.
Esfahani MS, Hamilton EG, Mehrmohamadi M, Nabet BY, Alig SK, King DA, Steen CB, Macaulay CW, Schultz A, Nesselbush MC, Soo J, Schroers-Martin JG, Chen B, Binkley MS, Stehr H, Chabon JJ, Sworder BJ, Hui AB, Frank MJ, Moding EJ, Liu CL, Newman AM, Isbell JM, Rudin CM, Li BT, Kurtz DM, Diehn M, Alizadeh AA. Esfahani MS, et al. Among authors: alizadeh aa. Nat Biotechnol. 2022 Apr;40(4):585-597. doi: 10.1038/s41587-022-01222-4. Epub 2022 Mar 31. Nat Biotechnol. 2022. PMID: 35361996 Free PMC article.
200 results