Bayesian optimisation for efficient material discovery: a mini review

Y **, PV Kumar - Nanoscale, 2023 - pubs.rsc.org
Bayesian optimisation (BO) has been increasingly utilised to guide material discovery. While
BO is advantageous due to its sample efficiency, flexibility and versatility, it is constrained by …

How can we discover developable antibody-based biotherapeutics?

J Bauer, N Rajagopal, P Gupta, P Gupta… - Frontiers in Molecular …, 2023 - frontiersin.org
Antibody-based biotherapeutics have emerged as a successful class of pharmaceuticals
despite significant challenges and risks to their discovery and development. This review …

Machine learning optimization of candidate antibody yields highly diverse sub-nanomolar affinity antibody libraries

L Li, E Gupta, J Spaeth, L Shing, R Jaimes… - Nature …, 2023 - nature.com
Therapeutic antibodies are an important and rapidly growing drug modality. However, the
design and discovery of early-stage antibody therapeutics remain a time and cost-intensive …

Regression transformer enables concurrent sequence regression and generation for molecular language modelling

J Born, M Manica - Nature Machine Intelligence, 2023 - nature.com
Despite tremendous progress of generative models in the natural sciences, their
controllability remains challenging. One fundamentally missing aspect of molecular or …

In vivo neutralization of coral snake venoms with an oligoclonal nanobody mixture in a murine challenge model

M Benard-Valle, Y Wouters, A Ljungars… - Nature …, 2024 - nature.com
Oligoclonal mixtures of broadly-neutralizing antibodies can neutralize complex compositions
of similar and dissimilar antigens, making them versatile tools for the treatment of eg …

The RESP AI model accelerates the identification of tight-binding antibodies

J Parkinson, R Hard, W Wang - Nature communications, 2023 - nature.com
High-affinity antibodies are often identified through directed evolution, which may require
many iterations of mutagenesis and selection to find an optimal candidate. Deep learning …

End-to-end meta-bayesian optimisation with transformer neural processes

A Maraval, M Zimmer, A Grosnit… - Advances in Neural …, 2023 - proceedings.neurips.cc
Meta-Bayesian optimisation (meta-BO) aims to improve the sample efficiency of Bayesian
optimisation by leveraging data from related tasks. While previous methods successfully …

A survey and benchmark of high-dimensional Bayesian optimization of discrete sequences

M González-Duque, R Michael… - Advances in …, 2025 - proceedings.neurips.cc
Optimizing discrete black-box functions is key in several domains, eg protein engineering
and drug design. Due to the lack of gradient information and the need for sample efficiency …

Deep learning in preclinical antibody drug discovery and development

Y Zhou, Z Huang, W Li, J Wei, Q Jiang, W Yang… - Methods, 2023 - Elsevier
Antibody drugs have become a key part of biotherapeutics. Patients suffering from various
diseases have benefited from antibody therapies. However, its development process is …

Bayesian optimization in drug discovery

L Colliandre, C Muller - High Performance Computing for Drug Discovery …, 2023 - Springer
Drug discovery deals with the search for initial hits and their optimization toward a targeted
clinical profile. Throughout the discovery pipeline, the candidate profile will evolve, but the …