J. Hammerbacher

Discovering tumor-reactive T-cell receptors through single-cell sequencing of tumor-infiltrating lymphocytes

The paper uses single-cell sequencing of tumor-infiltrating lymphocytes to identify and validate novel tumor-reactive T-cell receptors in a mouse model.

Massively parallel quantification of phenotypic heterogeneity in single cell drug responses

The paper develops a single-cell phenotyping tool to measure clonal properties at scale, applying it to study drug responses in AML clones and identifying rare resistance phenotypes.

Towards a scaled-up T cell-mediated cytotoxicity assay in 3D cell culture using microscopy

The paper develops a 3D cell culture system with microfluidics and automated widefield fluorescence microscopy to measure T cell-mediated cytotoxicity in tumor spheroids.

Viable and efficient electroporation-based genetic manipulation of unstimulated human T cells

This paper develops efficient electroporation protocols for genetic manipulation of unstimulated human T cells, enabling high-efficiency gene editing and expression with minimal cytotoxicity.

Extracting T Cell Function and Differentiation Characteristics from the Biomedical Literature

The paper extracts 283k relations between cell types, cytokines, and transcription factors from 64k biomedical documents using weak supervision and transfer learning.

Computational and experimental optimization of T cell activation

The paper optimizes T cell activation by identifying key culture factors and uncovering artifacts in bead-based activation methods.

Chemotherapy weakly contributes to predicted neoantigen expression in ovarian cancer

This study examines how chemotherapy affects neoantigen expression in ovarian cancer by analyzing mutational signatures and neoantigen burden in pre- and post-treatment samples.

MHCflurry: open-source class I MHC binding affinity prediction

MHCflurry is an open-source tool for predicting MHC I binding affinity, outperforming existing methods and offering faster performance.

PI3Kδ inhibition supports memory T cells with enhanced antitumor fitness

This paper shows that inhibiting PI3Kδ with CAL-101 enhances CD8+ T cell memory and antitumor efficacy in both murine and human models.

Somatic Mutations and Neoepitope Homology in Melanomas Treated with CTLA-4 Blockade

The paper reanalyzes exome and RNA-Seq data from melanoma patients treated with CTLA-4 blockade to assess the predictive value of somatic mutation burden and neoepitope homology to pathogens.