Cancer Program

Mutations and structural variants arising during double-strand break repair.

Dalin S, Webster S, Sugawara N, et al. Mutations and structural variants arising during double-strand break repair. Proceedings of the National Academy of Sciences of the United States of America. 2026;123(6):e2504584123. doi:10.1073/pnas.2504584123Google Scholar PubMed DOI

A context-augmented large language model for accurate precision oncology medicine recommendations.

Jun H, Tanaka Y, Johri S, et al. A context-augmented large language model for accurate precision oncology medicine recommendations. Cancer cell. 2026. doi:10.1016/j.ccell.2025.12.017Google Scholar PubMed DOI

Deep learning guided design of protease substrates.

Martin-Alonso C, Alamdari S, Samad TS, Yang KK, Bhatia SN, Amini AP. Deep learning guided design of protease substrates. Nature communications. 2026;17(1):54. doi:10.1038/s41467-025-67226-1Google Scholar PubMed DOI

Epigenetic dysregulation of metabolic programs mediates liposarcoma cell plasticity.

Pimenta EM, Garza AE, Camp SY, et al. Epigenetic dysregulation of metabolic programs mediates liposarcoma cell plasticity. Science translational medicine. 2026;18(833):eadw4689. doi:10.1126/scitranslmed.adw4689Google Scholar PubMed DOI

Sensitive detection of cancer antigens enabled by user-defined peptide libraries.

Manakongtreecheep K, Ctortecka C, Correa-Medero LO, et al. Sensitive detection of cancer antigens enabled by user-defined peptide libraries. Nature biotechnology. 2026. doi:10.1038/s41587-026-03003-9Google Scholar PubMed DOI

Nutrient requirements of organ-specific metastasis in breast cancer.

Abbott KL, Subudhi S, Ferreira R, et al. Nutrient requirements of organ-specific metastasis in breast cancer. Nature. 2026. doi:10.1038/s41586-025-09898-9Google Scholar PubMed DOI

Cell-free DNA epigenomic profiling enables noninvasive detection and monitoring of translocation renal cell carcinoma.

Garinet S, Semaan K, Li J, et al. Cell-free DNA epigenomic profiling enables noninvasive detection and monitoring of translocation renal cell carcinoma. The Journal of clinical investigation. 2026;136(3). doi:10.1172/JCI195725Google Scholar PubMed DOI

Improving atlas-scale single-cell annotation models with hierarchical cross-entropy loss.

di Montesano SC, D’Ascenzo D, Raghavan S, Amini AP, Winter PS, Crawford L. Improving atlas-scale single-cell annotation models with hierarchical cross-entropy loss. Nature computational science. 2026. doi:10.1038/s43588-025-00945-zGoogle Scholar PubMed DOI

A single-cell atlas characterizes dysregulation of the bone marrow immune microenvironment associated with outcomes in multiple myeloma.

Pilcher WC, Yao L, Gonzalez-Kozlova E, et al. A single-cell atlas characterizes dysregulation of the bone marrow immune microenvironment associated with outcomes in multiple myeloma. Nature cancer. 2026. doi:10.1038/s43018-025-01072-4Google Scholar PubMed DOI

A diverse landscape of FGFR alterations and co-mutations suggests potential therapeutic strategies in pediatric low-grade gliomas.

Apfelbaum AA, Morin E, Sturm D, et al. A diverse landscape of FGFR alterations and co-mutations suggests potential therapeutic strategies in pediatric low-grade gliomas. Nature communications. 2025;16(1):7018. doi:10.1038/s41467-025-61820-zGoogle Scholar PubMed DOI