Geometric deep learning on molecular representations

K Atz, F Grisoni, G Schneider - Nature Machine Intelligence, 2021 - nature.com
Geometric deep learning (GDL) is based on neural network architectures that incorporate
and process symmetry information. GDL bears promise for molecular modelling applications …

Concepts of artificial intelligence for computer-assisted drug discovery

X Yang, Y Wang, R Byrne, G Schneider… - Chemical …, 2019 - ACS Publications
Artificial intelligence (AI), and, in particular, deep learning as a subcategory of AI, provides
opportunities for the discovery and development of innovative drugs. Various machine …

Geometric deep learning of RNA structure

RJL Townshend, S Eismann, AM Watkins, R Rangan… - Science, 2021 - science.org
RNA molecules adopt three-dimensional structures that are critical to their function and of
interest in drug discovery. Few RNA structures are known, however, and predicting them …

Equibind: Geometric deep learning for drug binding structure prediction

H Stärk, O Ganea, L Pattanaik… - International …, 2022 - proceedings.mlr.press
Predicting how a drug-like molecule binds to a specific protein target is a core problem in
drug discovery. An extremely fast computational binding method would enable key …

Rapid identification of potential inhibitors of SARS‐CoV‐2 main protease by deep docking of 1.3 billion compounds

AT Ton, F Gentile, M Hsing, F Ban… - Molecular …, 2020 - Wiley Online Library
Abstract The recently emerged 2019 Novel Coronavirus (SARS‐CoV‐2) and associated
COVID‐19 disease cause serious or even fatal respiratory tract infection and yet no …

An open-source drug discovery platform enables ultra-large virtual screens

C Gorgulla, A Boeszoermenyi, ZF Wang, PD Fischer… - Nature, 2020 - nature.com
On average, an approved drug currently costs US $2–3 billion and takes more than 10 years
to develop. In part, this is due to expensive and time-consuming wet-laboratory experiments …

[PDF][PDF] Machine learning on graphs: A model and comprehensive taxonomy

I Chami, S Abu-El-Haija, B Perozzi, C Ré… - Journal of Machine …, 2022 - jmlr.org
There has been a surge of recent interest in graph representation learning (GRL). GRL
methods have generally fallen into three main categories, based on the availability of …

Utilizing graph machine learning within drug discovery and development

T Gaudelet, B Day, AR Jamasb, J Soman… - Briefings in …, 2021 - academic.oup.com
Graph machine learning (GML) is receiving growing interest within the pharmaceutical and
biotechnology industries for its ability to model biomolecular structures, the functional …

Transfer learning for drug discovery

C Cai, S Wang, Y Xu, W Zhang, K Tang… - Journal of Medicinal …, 2020 - ACS Publications
The data sets available to train models for in silico drug discovery efforts are often small.
Indeed, the sparse availability of labeled data is a major barrier to artificial-intelligence …

[HTML][HTML] GNINA 1.0: molecular docking with deep learning

AT McNutt, P Francoeur… - Journal of …, 2021 - jcheminf.biomedcentral.com
Molecular docking computationally predicts the conformation of a small molecule when
binding to a receptor. Scoring functions are a vital piece of any molecular docking pipeline …