6 papers
T-cell repertoire response in individuals with post-acute sequelae of COVID-19
Zachary Montague, Rhea M Grover, Andrew Baumgartner +3
T-cells are central to SARS-CoV-2 clearance and immunological memory, yet their contribution to the persistence of post-acute sequelae of COVID-19 (PASC) remains poorly understood.…
Design principles of the cytotoxic CD8+ T-cell response
Obinna A. Ukogu, Zachary Montague, Grégoire Altan-Bonnet +1
Cytotoxic T lymphocytes eliminate infected or malignant cells, safeguarding surrounding tissues. Although experimental and systems-immunology studies have cataloged many molecular…
HERMES: Holographic Equivariant neuRal network model for Mutational Effect and Stability prediction
Gian Marco Visani, William Galvin, Zac Jones +5
Predicting the stability and fitness effects of amino acid mutations in proteins is a cornerstone of biological discovery and engineering. Various experimental techniques have been…
T-cell receptor specificity landscape revealed through de novo peptide design
Gian Marco Visani, Michael N. Pun, Anastasia A. Minervina +3
T-cells play a key role in adaptive immunity by mounting specific responses against diverse pathogens. An effective binding between T-cell receptors (TCRs) and pathogen-derived pep…
Adaptive efficiency of information processing in immune-pathogen co-evolution
Quinn N Bellamy, Zachary Montague, Luca Peliti +1
Organisms have evolved immune systems that can counter pathogenic threats. The adaptive immune system in vertebrates consists of a diverse repertoire of immune receptors that can d…
Loop-Diffusion: an equivariant diffusion model for designing and scoring protein loops
Kevin Borisiak, Gian Marco Visani, Armita Nourmohammad
Predicting protein functional characteristics from structure remains a central problem in protein science, with broad implications from understanding the mechanisms of disease to d…