Modeling the expansion of virtual screening libraries
Recently,'tangible'virtual libraries have made billions of molecules readily available.
Prioritizing these molecules for synthesis and testing demands computational approaches …
Prioritizing these molecules for synthesis and testing demands computational approaches …
Accelerating high-throughput virtual screening through molecular pool-based active learning
Structure-based virtual screening is an important tool in early stage drug discovery that
scores the interactions between a target protein and candidate ligands. As virtual libraries …
scores the interactions between a target protein and candidate ligands. As virtual libraries …
Synthon-based ligand discovery in virtual libraries of over 11 billion compounds
AA Sadybekov, AV Sadybekov, Y Liu… - Nature, 2022 - nature.com
Abstract Structure-based virtual ligand screening is emerging as a key paradigm for early
drug discovery owing to the availability of high-resolution target structures,,–and ultra-large …
drug discovery owing to the availability of high-resolution target structures,,–and ultra-large …
A geometric deep learning approach to predict binding conformations of bioactive molecules
O Méndez-Lucio, M Ahmad… - Nature Machine …, 2021 - nature.com
Understanding the interactions formed between a ligand and its molecular target is key to
guiding the optimization of molecules. Different experimental and computational methods …
guiding the optimization of molecules. Different experimental and computational methods …
Structure-based virtual screening for ligands of G protein–coupled receptors: what can molecular docking do for you?
F Ballante, AJ Kooistra, S Kampen, C de Graaf… - Pharmacological …, 2021 - ASPET
G protein–coupled receptors (GPCRs) constitute the largest family of membrane proteins in
the human genome and are important therapeutic targets. During the last decade, the …
the human genome and are important therapeutic targets. During the last decade, the …
Improving protein-ligand docking results with high-throughput molecular dynamics simulations
H Guterres, W Im - Journal of Chemical Information and Modeling, 2020 - ACS Publications
Structure-based virtual screening relies on classical scoring functions that often fail to
reliably discriminate binders from nonbinders. In this work, we present a high-throughput …
reliably discriminate binders from nonbinders. In this work, we present a high-throughput …
Autonomous discovery in the chemical sciences part I: Progress
This two‐part Review examines how automation has contributed to different aspects of
discovery in the chemical sciences. In this first part, we describe a classification for …
discovery in the chemical sciences. In this first part, we describe a classification for …
Accelerating bayesian optimization for biological sequence design with denoising autoencoders
Bayesian optimization (BayesOpt) is a gold standard for query-efficient continuous
optimization. However, its adoption for drug design has been hindered by the discrete, high …
optimization. However, its adoption for drug design has been hindered by the discrete, high …
Graph neural networks for automated de novo drug design
Highlights•GNN has attracted wide attention from the field of designing drug molecules.•The
applications of GNN in molecule scoring, molecule generation and optimization, and …
applications of GNN in molecule scoring, molecule generation and optimization, and …
The synthesizability of molecules proposed by generative models
The discovery of functional molecules is an expensive and time-consuming process,
exemplified by the rising costs of small molecule therapeutic discovery. One class of …
exemplified by the rising costs of small molecule therapeutic discovery. One class of …