Computational approaches to therapeutic antibody design: established methods and emerging trends

RA Norman, F Ambrosetti, AMJJ Bonvin… - Briefings in …, 2020 - academic.oup.com
Antibodies are proteins that recognize the molecular surfaces of potentially noxious
molecules to mount an adaptive immune response or, in the case of autoimmune diseases …

Current advances in biopharmaceutical informatics: guidelines, impact and challenges in the computational developability assessment of antibody therapeutics

R Khetan, R Curtis, CM Deane, JT Hadsund, U Kar… - MAbs, 2022 - Taylor & Francis
Therapeutic monoclonal antibodies and their derivatives are key components of clinical
pipelines in the global biopharmaceutical industry. The availability of large datasets of …

mRNA vaccines induce durable immune memory to SARS-CoV-2 and variants of concern

RR Goel, MM Painter, SA Apostolidis, D Mathew… - Science, 2021 - science.org
INTRODUCTION Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) mRNA
vaccines are highly effective at preventing infection and especially severe disease …

Lipid nanoparticles enhance the efficacy of mRNA and protein subunit vaccines by inducing robust T follicular helper cell and humoral responses

MG Alameh, I Tombácz, E Bettini, K Lederer… - Immunity, 2021 - cell.com
Adjuvants are critical for improving the quality and magnitude of adaptive immune
responses to vaccination. Lipid nanoparticle (LNP)-encapsulated nucleoside-modified …

Distinct antibody and memory B cell responses in SARS-CoV-2 naïve and recovered individuals after mRNA vaccination

RR Goel, SA Apostolidis, MM Painter, D Mathew… - Science …, 2021 - science.org
mRNA vaccines for SARS-CoV-2 have been authorized for emergency use. Despite their
efficacy in clinical trials, data on mRNA vaccine–induced immune responses are mostly …

Tissue adaptation and clonal segregation of human memory T cells in barrier sites

MML Poon, DP Caron, Z Wang, SB Wells, D Chen… - Nature …, 2023 - nature.com
T lymphocytes migrate to barrier sites after exposure to pathogens, providing localized
immunity and long-term protection. Here, we obtained blood and tissues from human organ …

Comprehensive map** of immune perturbations associated with severe COVID-19

L Kuri-Cervantes, MB Pampena, W Meng… - Science …, 2020 - science.org
Although critical illness has been associated with SARS-CoV-2–induced hyperinflammation,
the immune correlates of severe COVID-19 remain unclear. Here, we comprehensively …

The transcription factor T-bet resolves memory B cell subsets with distinct tissue distributions and antibody specificities in mice and humans

JL Johnson, RL Rosenthal, JJ Knox, A Myles… - Immunity, 2020 - cell.com
B cell subsets expressing the transcription factor T-bet are associated with humoral immune
responses and autoimmunity. Here, we examined the anatomic distribution, clonal …

Modern hopfield networks and attention for immune repertoire classification

M Widrich, B Schäfl, M Pavlović… - Advances in neural …, 2020 - proceedings.neurips.cc
A central mechanism in machine learning is to identify, store, and recognize patterns. How to
learn, access, and retrieve such patterns is crucial in Hopfield networks and the more recent …

IGHV allele similarity clustering improves genotype inference from adaptive immune receptor repertoire sequencing data

A Peres, WD Lees, OL Rodriguez, NY Lee… - Nucleic Acids …, 2023 - academic.oup.com
In adaptive immune receptor repertoire analysis, determining the germline variable (V) allele
associated with each T-and B-cell receptor sequence is a crucial step. This process is highly …