Artificial intelligence–enabled virtual screening of ultra-large chemical libraries with deep docking

F Gentile, JC Yaacoub, J Gleave, M Fernandez… - Nature …, 2022 - nature.com
With the recent explosion of chemical libraries beyond a billion molecules, more efficient
virtual screening approaches are needed. The Deep Docking (DD) platform enables up to …

Computational and artificial intelligence-based methods for antibody development

J Kim, M McFee, Q Fang, O Abdin, PM Kim - Trends in Pharmacological …, 2023 - cell.com
Due to their high target specificity and binding affinity, therapeutic antibodies are currently
the largest class of biotherapeutics. The traditional largely empirical antibody development …

Identification of potent antimicrobial peptides via a machine-learning pipeline that mines the entire space of peptide sequences

J Huang, Y Xu, Y Xue, Y Huang, X Li, X Chen… - Nature Biomedical …, 2023 - nature.com
Systematically identifying functional peptides is difficult owing to the vast combinatorial
space of peptide sequences. Here we report a machine-learning pipeline that mines the …

Surely you are joking, Mr Docking!

F Gentile, TI Oprea, A Tropsha… - Chemical Society Reviews, 2023 - pubs.rsc.org
In the wake of recent COVID-19 pandemics scientists around the world rushed to deliver
numerous CADD (Computer-Aided Drug Discovery) methods and tools that could be reliably …

Automated discovery of noncovalent inhibitors of SARS-CoV-2 main protease by consensus Deep Docking of 40 billion small molecules

F Gentile, M Fernandez, F Ban, AT Ton, H Mslati… - Chemical …, 2021 - pubs.rsc.org
Recent explosive growth of 'make-on-demand'chemical libraries brought unprecedented
opportunities but also significant challenges to the field of computer-aided drug discovery …

Reviewing methods of deep learning for diagnosing COVID-19, its variants and synergistic medicine combinations

Q Rafique, A Rehman, MS Afghan, HM Ahmad… - Computers in Biology …, 2023 - Elsevier
The COVID-19 pandemic has necessitated the development of reliable diagnostic methods
for accurately detecting the novel coronavirus and its variants. Deep learning (DL) …

Artificial intelligence for drug discovery: Are we there yet?

C Hasselgren, TI Oprea - Annual Review of Pharmacology and …, 2024 - annualreviews.org
Drug discovery is adapting to novel technologies such as data science, informatics, and
artificial intelligence (AI) to accelerate effective treatment development while reducing costs …

An interaction-based drug discovery screen explains known SARS-CoV-2 inhibitors and predicts new compound scaffolds

P Schake, K Dishnica, F Kaiser, C Leberecht… - Scientific Reports, 2023 - nature.com
The recent outbreak of the COVID-19 pandemic caused by severe acute respiratory
syndrome-Coronavirus-2 (SARS-CoV-2) has shown the necessity for fast and broad drug …

Methodology-centered review of molecular modeling, simulation, and prediction of SARS-CoV-2

K Gao, R Wang, J Chen, L Cheng, J Frishcosy… - Chemical …, 2022 - ACS Publications
Despite tremendous efforts in the past two years, our understanding of severe acute
respiratory syndrome coronavirus 2 (SARS-CoV-2), virus–host interactions, immune …

Computational protein design for COVID-19 research and emerging therapeutics

P Kalita, T Tripathi, AK Padhi - ACS Central Science, 2023 - ACS Publications
As the world struggles with the ongoing COVID-19 pandemic, unprecedented obstacles
have continuously been traversed as new SARS-CoV-2 variants continually emerge …