Recent applications of deep learning and machine intelligence on in silico drug discovery: methods, tools and databases

AS Rifaioglu, H Atas, MJ Martin… - Briefings in …, 2019 - academic.oup.com
The identification of interactions between drugs/compounds and their targets is crucial for
the development of new drugs. In vitro screening experiments (ie bioassays) are frequently …

Deep learning in virtual screening: recent applications and developments

TB Kimber, Y Chen, A Volkamer - International journal of molecular …, 2021 - mdpi.com
Drug discovery is a cost and time-intensive process that is often assisted by computational
methods, such as virtual screening, to speed up and guide the design of new compounds …

Interpretable bilinear attention network with domain adaptation improves drug–target prediction

P Bai, F Miljković, B John, H Lu - Nature Machine Intelligence, 2023 - nature.com
Predicting drug–target interaction is key for drug discovery. Recent deep learning-based
methods show promising performance, but two challenges remain: how to explicitly model …

GraphDTA: predicting drug–target binding affinity with graph neural networks

T Nguyen, H Le, TP Quinn, T Nguyen, TD Le… - …, 2021 - academic.oup.com
The development of new drugs is costly, time consuming and often accompanied with safety
issues. Drug repurposing can avoid the expensive and lengthy process of drug development …

MolTrans: molecular interaction transformer for drug–target interaction prediction

K Huang, C **ao, LM Glass, J Sun - Bioinformatics, 2021 - academic.oup.com
Motivation Drug–target interaction (DTI) prediction is a foundational task for in-silico drug
discovery, which is costly and time-consuming due to the need of experimental search over …

Biot5: Enriching cross-modal integration in biology with chemical knowledge and natural language associations

Q Pei, W Zhang, J Zhu, K Wu, K Gao, L Wu… - arxiv preprint arxiv …, 2023 - arxiv.org
Recent advancements in biological research leverage the integration of molecules, proteins,
and natural language to enhance drug discovery. However, current models exhibit several …

iFeature: a Python package and web server for features extraction and selection from protein and peptide sequences

Z Chen, P Zhao, F Li, A Leier, TT Marquez-Lago… - …, 2018 - academic.oup.com
Structural and physiochemical descriptors extracted from sequence data have been widely
used to represent sequences and predict structural, functional, expression and interaction …

Deep-learning-based drug–target interaction prediction

M Wen, Z Zhang, S Niu, H Sha, R Yang… - Journal of proteome …, 2017 - ACS Publications
Identifying interactions between known drugs and targets is a major challenge in drug
repositioning. In silico prediction of drug–target interaction (DTI) can speed up the expensive …

Machine intelligence in peptide therapeutics: A next‐generation tool for rapid disease screening

S Basith, B Manavalan, T Hwan Shin… - Medicinal research …, 2020 - Wiley Online Library
Discovery and development of biopeptides are time‐consuming, laborious, and dependent
on various factors. Data‐driven computational methods, especially machine learning (ML) …

iLearn: an integrated platform and meta-learner for feature engineering, machine-learning analysis and modeling of DNA, RNA and protein sequence data

Z Chen, P Zhao, F Li, TT Marquez-Lago… - Briefings in …, 2020 - academic.oup.com
With the explosive growth of biological sequences generated in the post-genomic era, one
of the most challenging problems in bioinformatics and computational biology is to …