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Publications

SWIFT-seq enables comprehensive single-cell transcriptomic profiling of circulating tumor cells in multiple myeloma and its precursors.

Lightbody ED, Sklavenitis-Pistofidis R, Wu T, et al. SWIFT-seq enables comprehensive single-cell transcriptomic profiling of circulating tumor cells in multiple myeloma and its precursors. Nature cancer. 2025. doi:10.1038/s43018-025-01006-0

Learning Universal Representations of Intermolecular Interactions with ATOMICA.

Fang A, Desgagné M, Zhang Z, et al. Learning Universal Representations of Intermolecular Interactions with ATOMICA. bioRxiv : the preprint server for biology. 2025. doi:10.1101/2025.04.02.646906

Expanding the druggable zinc-finger proteome defines properties of drug-induced degradation.

Słabicki M. Expanding the druggable zinc-finger proteome defines properties of drug-induced degradation. Molecular cell. 2025;85(16):3184-3201.e14. doi:10.1016/j.molcel.2025.07.019

A generative deep learning approach to de novo antibiotic design.

Krishnan A. A generative deep learning approach to de novo antibiotic design. Cell. 2025. doi:10.1016/j.cell.2025.07.033

Multiple overlapping binding sites determine transcription factor occupancy.

Khetan S, Carroll BS, Bulyk ML. Multiple overlapping binding sites determine transcription factor occupancy. Nature. 2025. doi:10.1038/s41586-025-09472-3

Polymorphic tandem repeats influence cell type-specific gene expression across the human immune landscape.

Tanudisastro HA, Cuomo ASE, Weisburd B, et al. Polymorphic tandem repeats influence cell type-specific gene expression across the human immune landscape. bioRxiv : the preprint server for biology. 2025. doi:10.1101/2024.11.02.621562

Integrative genomic identification of therapeutic targets for pancreatic cancer.

Guo JA, Gong D, Evans K, et al. Integrative genomic identification of therapeutic targets for pancreatic cancer. Cell reports. 2025;44(9):116191. doi:10.1016/j.celrep.2025.116191

Mature and migratory dendritic cells promote immune infiltration and response to anti-PD-1 checkpoint blockade in metastatic melanoma.

Yang J, Wang C, Fu D, et al. Mature and migratory dendritic cells promote immune infiltration and response to anti-PD-1 checkpoint blockade in metastatic melanoma. Nature communications. 2025;16(1):8151. doi:10.1038/s41467-025-62878-5

The evolution of hominin bipedalism in two steps.

Senevirathne G, Fernandopulle SC, Richard D, et al. The evolution of hominin bipedalism in two steps. Nature. 2025. doi:10.1038/s41586-025-09399-9

Reproducible single-cell annotation of programs underlying T cell subsets, activation states and functions.

Kotliar D, Curtis M, Agnew R, et al. Reproducible single-cell annotation of programs underlying T cell subsets, activation states and functions. Nature methods. 2025. doi:10.1038/s41592-025-02793-1