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Personalized RNA neoantigen vaccines stimulate T cells in pancreatic cancer

Luis A. Rojas, Zachary Sethna, Kevin C. Soares, Cristina Olcese, Nan Pang, Erin Patterson, Jayon Lihm, Nicholas Ceglia, Pablo Guasp, Alexander Chu, Rebecca Yu, Adrienne Kaya Chandra, Theresa Waters, Jennifer Ruan, Masataka Amisaki, Abderezak Zebboudj, Zagaa Odgerel, George Payne, Evelyna Derhovanessian, Felicitas Müller, Ina Rhee, Mahesh Yadav, Anton Dobrin, Michel Sadelain, Marta Łuksza, Noah Cohen, Laura Tang, Olca Basturk, Mithat Gönen, Seth Katz, Richard Kinh Do, Andrew S. Epstein, Parisa Momtaz, Wungki Park, Ryan Sugarman, Anna M. Varghese, Elizabeth Won, Avni Desai, Alice C. Wei, Michael I. D’Angelica, T. Peter Kingham, Ira Mellman, Taha Merghoub, Jedd D. Wolchok, Ugur Sahin, Özlem Türeci, Benjamin D. Greenbaum (), William R. Jarnagin, Jeffrey Drebin, Eileen M. O’Reilly and Vinod P. Balachandran ()
Additional contact information
Luis A. Rojas: Memorial Sloan Kettering Cancer Center
Zachary Sethna: Memorial Sloan Kettering Cancer Center
Kevin C. Soares: Memorial Sloan Kettering Cancer Center
Cristina Olcese: Memorial Sloan Kettering Cancer Center
Nan Pang: Memorial Sloan Kettering Cancer Center
Erin Patterson: Memorial Sloan Kettering Cancer Center
Jayon Lihm: Memorial Sloan Kettering Cancer Center
Nicholas Ceglia: Memorial Sloan Kettering Cancer Center
Pablo Guasp: Memorial Sloan Kettering Cancer Center
Alexander Chu: Memorial Sloan Kettering Cancer Center
Rebecca Yu: Memorial Sloan Kettering Cancer Center
Adrienne Kaya Chandra: Memorial Sloan Kettering Cancer Center
Theresa Waters: Memorial Sloan Kettering Cancer Center
Jennifer Ruan: Memorial Sloan Kettering Cancer Center
Masataka Amisaki: Memorial Sloan Kettering Cancer Center
Abderezak Zebboudj: Memorial Sloan Kettering Cancer Center
Zagaa Odgerel: Memorial Sloan Kettering Cancer Center
George Payne: Memorial Sloan Kettering Cancer Center
Evelyna Derhovanessian: BioNTech
Felicitas Müller: BioNTech
Ina Rhee: Genentech
Mahesh Yadav: Genentech
Anton Dobrin: Memorial Sloan Kettering Cancer Center
Michel Sadelain: Memorial Sloan Kettering Cancer Center
Marta Łuksza: Tisch Cancer Institute, Icahn School of Medicine at Mount Sinai
Noah Cohen: Icahn School of Medicine at Mount Sinai
Laura Tang: Memorial Sloan Kettering Cancer Center
Olca Basturk: Memorial Sloan Kettering Cancer Center
Mithat Gönen: Memorial Sloan Kettering Cancer Center
Seth Katz: Memorial Sloan Kettering Cancer Center
Richard Kinh Do: Memorial Sloan Kettering Cancer Center
Andrew S. Epstein: Memorial Sloan Kettering Cancer Center
Parisa Momtaz: Memorial Sloan Kettering Cancer Center
Wungki Park: Memorial Sloan Kettering Cancer Center
Ryan Sugarman: Memorial Sloan Kettering Cancer Center
Anna M. Varghese: Memorial Sloan Kettering Cancer Center
Elizabeth Won: Memorial Sloan Kettering Cancer Center
Avni Desai: Memorial Sloan Kettering Cancer Center
Alice C. Wei: Memorial Sloan Kettering Cancer Center
Michael I. D’Angelica: Memorial Sloan Kettering Cancer Center
T. Peter Kingham: Memorial Sloan Kettering Cancer Center
Ira Mellman: Genentech
Taha Merghoub: Weill Cornell Medical College
Jedd D. Wolchok: Weill Cornell Medical College
Ugur Sahin: BioNTech
Özlem Türeci: BioNTech
Benjamin D. Greenbaum: Memorial Sloan Kettering Cancer Center
William R. Jarnagin: Memorial Sloan Kettering Cancer Center
Jeffrey Drebin: Memorial Sloan Kettering Cancer Center
Eileen M. O’Reilly: Memorial Sloan Kettering Cancer Center
Vinod P. Balachandran: Memorial Sloan Kettering Cancer Center

Nature, 2023, vol. 618, issue 7963, 144-150

Abstract: Abstract Pancreatic ductal adenocarcinoma (PDAC) is lethal in 88% of patients1, yet harbours mutation-derived T cell neoantigens that are suitable for vaccines 2,3. Here in a phase I trial of adjuvant autogene cevumeran, an individualized neoantigen vaccine based on uridine mRNA–lipoplex nanoparticles, we synthesized mRNA neoantigen vaccines in real time from surgically resected PDAC tumours. After surgery, we sequentially administered atezolizumab (an anti-PD-L1 immunotherapy), autogene cevumeran (a maximum of 20 neoantigens per patient) and a modified version of a four-drug chemotherapy regimen (mFOLFIRINOX, comprising folinic acid, fluorouracil, irinotecan and oxaliplatin). The end points included vaccine-induced neoantigen-specific T cells by high-threshold assays, 18-month recurrence-free survival and oncologic feasibility. We treated 16 patients with atezolizumab and autogene cevumeran, then 15 patients with mFOLFIRINOX. Autogene cevumeran was administered within 3 days of benchmarked times, was tolerable and induced de novo high-magnitude neoantigen-specific T cells in 8 out of 16 patients, with half targeting more than one vaccine neoantigen. Using a new mathematical strategy to track T cell clones (CloneTrack) and functional assays, we found that vaccine-expanded T cells comprised up to 10% of all blood T cells, re-expanded with a vaccine booster and included long-lived polyfunctional neoantigen-specific effector CD8+ T cells. At 18-month median follow-up, patients with vaccine-expanded T cells (responders) had a longer median recurrence-free survival (not reached) compared with patients without vaccine-expanded T cells (non-responders; 13.4 months, P = 0.003). Differences in the immune fitness of the patients did not confound this correlation, as responders and non-responders mounted equivalent immunity to a concurrent unrelated mRNA vaccine against SARS-CoV-2. Thus, adjuvant atezolizumab, autogene cevumeran and mFOLFIRINOX induces substantial T cell activity that may correlate with delayed PDAC recurrence.

Date: 2023
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DOI: 10.1038/s41586-023-06063-y

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