From machine learning to deep learning: Advances in scoring functions for protein–ligand docking
… learning (ML) techniques, ML-based SFs have gradually emerged as a promising alternative
for protein–ligand … Emergence of more data-hungry deep learning (DL) approaches in …
for protein–ligand … Emergence of more data-hungry deep learning (DL) approaches in …
Combining docking pose rank and structure with deep learning improves protein–ligand binding mode prediction over a baseline docking approach
… In this work, we have developed a new set of deep learning models that take the output of
docking programs as input. Our models can be fashioned to classify activity (virtual screening) …
docking programs as input. Our models can be fashioned to classify activity (virtual screening) …
A deep-learning approach toward rational molecular docking protocol selection
J Jiménez-Luna, A Cuzzolin, G Bolcato, M Sturlese… - Molecules, 2020 - mdpi.com
… both select the best possible docking protocol given a protein–ligand pair and to provide
insight into which protein–ligand pairs will result in a better pose given a docking protocol. We …
insight into which protein–ligand pairs will result in a better pose given a docking protocol. We …
Deep learning model for flexible and efficient protein-ligand docking
M Masters, AH Mahmoud, Y Wei… - … Machine Learning for Drug …, 2022 - openreview.net
… the ligand-binding process. Here we present a deep learning model for flexible protein-ligand
docking … Our method introduces a new approach for the reconstruction of ligand poses in …
docking … Our method introduces a new approach for the reconstruction of ligand poses in …
Deep learning model for efficient protein–ligand docking with implicit side-chain flexibility
MR Masters, AH Mahmoud, Y Wei… - Journal of Chemical …, 2023 - ACS Publications
… essential feature of the ligand-binding process. Flexible protein–ligand docking still remains
a … , we present a deep learning (DL) model for flexible protein–ligand docking based on the …
a … , we present a deep learning (DL) model for flexible protein–ligand docking based on the …
DeepBSP—a machine learning method for accurate prediction of protein–ligand docking structures
J Bao, X He, JZH Zhang - Journal of chemical information and …, 2021 - ACS Publications
… -learning model, named DeepBSP, that can directly predict the root mean square deviation
(rmsd) of a ligand docking … Unlike the binding affinity, the rmsd between the docking poses …
(rmsd) of a ligand docking … Unlike the binding affinity, the rmsd between the docking poses …
Deep docking: a deep learning platform for augmentation of structure based drug discovery
… introduce Deep Docking (DD), a novel deep learning platform that is suitable for docking …
DD appears to clearly bias final sets toward high docking scores, and since active ligands …
DD appears to clearly bias final sets toward high docking scores, and since active ligands …
Advancing Ligand Docking through Deep Learning: Challenges and Prospects in Virtual Screening
… Deep learning protocols for ligand docking. (A) Predicting the protein–ligand (PL) distance
… His research focuses on the applications of deep learning in ligand docking and virtual …
… His research focuses on the applications of deep learning in ligand docking and virtual …
DEELIG: A deep learning approach to predict protein-ligand binding affinity
… Deep learning has been known to learn representations and patterns in … deep learning
to predict binding affinity of protein-nonpeptide ligand interaction without the need of a docked …
to predict binding affinity of protein-nonpeptide ligand interaction without the need of a docked …
Boosting docking-based virtual screening with deep learning
JC Pereira, ER Caffarena… - Journal of chemical …, 2016 - ACS Publications
… DeepVS learns abstract features that are suitable to discriminate between active ligands …
deep learning to improve docking-based virtual screening. Recent works on improving docking-…
deep learning to improve docking-based virtual screening. Recent works on improving docking-…
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