S. Cooper

Cyclone: an accessible pipeline to analyze, evaluate and optimize multiparametric cytometry data

Cyclone is a pipeline for analyzing, evaluating, and optimizing multiparametric cytometry data, demonstrating effectiveness across multiple cytometry technologies and biological contexts.

Base editing screens map mutations affecting IFNγ signalling in cancer

This study uses base editing to identify mutations affecting IFNγ signalling in cancer, revealing loss- and gain-of-function variants with clinical relevance.

Liver Organoid and T Cell Coculture Models Cytotoxic T Cell Responses against Hepatitis C Virus

This paper develops a microfluidic coculture system of liver organoids and T cells to study HCV-specific cytotoxic T cell responses in vitro.

Establishment of a Patient-Derived, Magnetic Levitation-Based, 3D Spheroid Granuloma Model for Human Tuberculosis.

This paper establishes a 3D spheroid granuloma model for human tuberculosis to study immune responses and drug interventions in a more physiologically relevant environment.

Horizontal transfer of a pathway for coumarate catabolism unexpectedly inhibits purine nucleotide biosynthesis

The paper shows that horizontal transfer of coumarate catabolism pathways into E. coli requires host mutations to function, as intermediates inhibit purine biosynthesis, and some mutations are already present in the native host.

The expression of class II major histocompatibility molecules on breast tumors delays T cell exhaustion, expands the T cell repertoire and slows tumor growth

This study shows that MHCII expression on breast tumors slows growth, recruits more T cells, expands TCR diversity, and delays exhaustion, but does not prevent exhaustion.