Publications by authors named "Benjamin Greenbaum"

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Repeats mimic pathogen-associated patterns across a vast evolutionary landscape.
Petr Šulc, Andrea Di Gioacchino, Alexander Solovyov, Siyu Sun, Stephen Martis, Benjamin D Greenbaum

Cell Genom· December 2025

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Neoantigenic properties of TP53 variants influence cancer risk in individuals with Li-Fraumeni syndrome.
Emilie Montellier, Olivier Manches, Jonathan Gaucher, Claire Freycon, David Hoyos, Benjamin D Greenbaum

EBioMedicine· December 2025

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T cell epitope mapping reveals immunodominance of evolutionarily conserved regions within SARS-CoV-2 proteome.
Cansu Cimen Bozkus, Matthew Brown, Leandra Velazquez, Marcus Thomas, Eric A Wilson, Benjamin D Greenbaum

iScience· August 2025

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Restoration of the Tumor Suppressor Function of Y220C-Mutant p53 by Rezatapopt, a Small-Molecule Reactivator.
Anna M Puzio-Kuter, Lizhong Xu, Mary Kate McBrayer, Romyr Dominique, Hongju H Li, Benjamin D Greenbaum

Cancer Discov· June 2025

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Mis-splicing-derived neoantigens and cognate TCRs in splicing factor mutant leukemias.
Won Jun Kim, Edie I Crosse, Emma De Neef, Inaki Etxeberria, Erich Y Sabio, Benjamin D Greenbaum

Cell· June 2025

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Deciphering the Code of Viral-Host Adaptation Through Maximum-Entropy Nucleotide Bias Models.
Andrea Di Gioacchino, Ivan Lecce, Benjamin D Greenbaum, Rémi Monasson, Simona Cocco

Mol Biol Evol· June 2025

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LINE-1 ORF1p Mimics Viral Innate Immune Evasion Mechanisms in Pancreatic Ductal Adenocarcinoma.
Eunae You, Bidish K Patel, Alexandra S Rojas, Siyu Sun, Patrick Danaher, Benjamin D Greenbaum

Cancer Discov· May 2025

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T cell epitope mapping reveals immunodominance of evolutionarily conserved regions within SARS-CoV-2 proteome.
Cansu Cimen Bozkus, Matthew Brown, Leandra Velazquez, Marcus Thomas, Eric A Wilson, Benjamin D Greenbaum

bioRxiv· April 2025

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Chronic Viral Mimicry Induction following p53 Loss Promotes Immune Evasion.
Charles A Ishak, Sajid A Marhon, Naïri Tchrakian, Anjelica Hodgson, Helen Loo Yau, Benjamin D Greenbaum

Cancer Discov· April 2025

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An inflammatory biomarker signature of response to CAR-T cell therapy in non-Hodgkin lymphoma.
Sandeep S Raj, Teng Fei, Shalev Fried, Andrew Ip, Joshua A Fein, Benjamin D Greenbaum

Nat Med· April 2025

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Molecular Heterogeneity and Immune Infiltration Drive Clinical Outcomes in Upper Tract Urothelial Carcinoma.
Kwanghee Kim, Syed M Alam, Fengshen Kuo, Ziyu Chen, Wesley Yip, Benjamin Greenbaum

Eur Urol· March 2025

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Terminal differentiation and persistence of effector regulatory T cells essential for preventing intestinal inflammation.
Stanislav Dikiy, Aazam P Ghelani, Andrew G Levine, Stephen Martis, Paolo Giovanelli, Benjamin D Greenbaum

Nat Immunol· March 2025

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RNA neoantigen vaccines prime long-lived CD8 T cells in pancreatic cancer.
Zachary Sethna, Pablo Guasp, Charlotte Reiche, Martina Milighetti, Nicholas Ceglia, Benjamin D Greenbaum

Nature· March 2025

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Author Correction: Pan-cancer multi-omic model of LINE-1 activity reveals locus heterogeneity of retrotransposition efficiency.
Alexander Solovyov, Julie M Behr, David Hoyos, Eric Banks, Alexander W Drong, Benjamin D Greenbaum

Nat Commun· March 2025

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IL-33-activated ILC2s induce tertiary lymphoid structures in pancreatic cancer.
Masataka Amisaki, Abderezak Zebboudj, Hiroshi Yano, Siqi Linsey Zhang, George Payne, Benjamin Greenbaum

Nature· February 2025

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Pan-cancer multi-omic model of LINE-1 activity reveals locus heterogeneity of retrotransposition efficiency.
Alexander Solovyov, Julie M Behr, David Hoyos, Eric Banks, Alexander W Drong, Benjamin D Greenbaum

Nat Commun· February 2025

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Disruption of cellular plasticity by repeat RNAs in human pancreatic cancer.
Eunae You, Patrick Danaher, Chenyue Lu, Siyu Sun, Luli Zou, Benjamin D Greenbaum

Cell· December 2024

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Cancer cells restrict immunogenicity of retrotransposon expression via distinct mechanisms.
Siyu Sun, Eunae You, Jungeui Hong, David Hoyos, Isabella Del Priore, Benjamin D Greenbaum

Immunity· December 2024

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Interferon response and epigenetic modulation by mutations drive ovarian tumor immunogenicity.
Melica Nourmoussavi Brodeur, Higinio Dopeso, Yingjie Zhu, Ana Leda F Longhini, Andrea Gazzo, Benjamin Greenbaum

Sci Adv· December 2024

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Intratumoral T-cell composition predicts epcoritamab-based treatment efficacy in B-cell non-Hodgkin lymphomas.
Lorenzo Falchi, Jahan Rahman, Lauren Melendez, Monifa Douglas, Walter Ramos Amador, Benjamin Greenbaum

medRxiv· July 2024

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Distinct genomic and immunologic tumor evolution in germline -driven breast cancers.
Nabamita Boruah, David Hoyos, Renyta Moses, Ryan Hausler, Heena Desai, Benjamin D Greenbaum

bioRxiv· April 2024

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Structures, functions and adaptations of the human LINE-1 ORF2 protein.
Eric T Baldwin, Trevor van Eeuwen, David Hoyos, Arthur Zalevsky, Egor P Tchesnokov, Benjamin D Greenbaum

Nature· February 2024

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Clinical and molecular features of acquired resistance to immunotherapy in non-small cell lung cancer.
Danish Memon, Adam J Schoenfeld, Darwin Ye, George Fromm, Hira Rizvi, Benjamin D Greenbaum

Cancer Cell· February 2024

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Retroelement decay by the exonuclease XRN1 is a viral mimicry dependency in cancer.
Amir Hosseini, Håvard T Lindholm, Raymond Chen, Parinaz Mehdipour, Sajid A Marhon, Benjamin Greenbaum

Cell Rep· February 2024

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Proceedings of the inaugural Dark Genome Symposium: November 2022.
Jef D Boeke, Kathleen H Burns, Katherine B Chiappinelli, Marie Classon, John M Coffin, Benjamin Greenbaum

Mob DNA· November 2023

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