Machine learning approaches and databases for prediction of drug–target interaction: a survey paper

M Bagherian, E Sabeti, K Wang… - Briefings in …, 2021 - academic.oup.com
The task of predicting the interactions between drugs and targets plays a key role in the
process of drug discovery. There is a need to develop novel and efficient prediction …

Target identification and mechanism of action in chemical biology and drug discovery

M Schenone, V Dančík, BK Wagner… - Nature chemical …, 2013 - nature.com
Target-identification and mechanism-of-action studies have important roles in small-
molecule probe and drug discovery. Biological and technological advances have resulted in …

Protgnn: Towards self-explaining graph neural networks

Z Zhang, Q Liu, H Wang, C Lu, C Lee - Proceedings of the AAAI …, 2022 - ojs.aaai.org
Despite the recent progress in Graph Neural Networks (GNNs), it remains challenging to
explain the predictions made by GNNs. Existing explanation methods mainly focus on post …

[HTML][HTML] DeepConv-DTI: Prediction of drug-target interactions via deep learning with convolution on protein sequences

I Lee, J Keum, H Nam - PLoS computational biology, 2019 - journals.plos.org
Identification of drug-target interactions (DTIs) plays a key role in drug discovery. The high
cost and labor-intensive nature of in vitro and in vivo experiments have highlighted the …

Computational prediction of drug–target interactions using chemogenomic approaches: an empirical survey

A Ezzat, M Wu, XL Li, CK Kwoh - Briefings in bioinformatics, 2019 - academic.oup.com
Computational prediction of drug–target interactions (DTIs) has become an essential task in
the drug discovery process. It narrows down the search space for interactions by suggesting …

Structure and dynamics of molecular networks: a novel paradigm of drug discovery: a comprehensive review

P Csermely, T Korcsmáros, HJM Kiss, G London… - Pharmacology & …, 2013 - Elsevier
Despite considerable progress in genome-and proteome-based high-throughput screening
methods and in rational drug design, the increase in approved drugs in the past decade did …

[HTML][HTML] Prediction of drug-target interactions and drug repositioning via network-based inference

F Cheng, C Liu, J Jiang, W Lu, W Li, G Liu… - PLoS computational …, 2012 - journals.plos.org
Drug-target interaction (DTI) is the basis of drug discovery and design. It is time consuming
and costly to determine DTI experimentally. Hence, it is necessary to develop computational …

[HTML][HTML] ChemDes: an integrated web-based platform for molecular descriptor and fingerprint computation

J Dong, DS Cao, HY Miao, S Liu, BC Deng… - Journal of …, 2015 - Springer
Background Molecular descriptors and fingerprints have been routinely used in QSAR/SAR
analysis, virtual drug screening, compound search/ranking, drug ADME/T prediction and …

Some remarks on protein attribute prediction and pseudo amino acid composition

KC Chou - Journal of theoretical biology, 2011 - Elsevier
With the accomplishment of human genome sequencing, the number of sequence-known
proteins has increased explosively. In contrast, the pace is much slower in determining their …

TargetNet: a web service for predicting potential drug–target interaction profiling via multi-target SAR models

ZJ Yao, J Dong, YJ Che, MF Zhu, M Wen… - Journal of computer …, 2016 - Springer
Drug–target interactions (DTIs) are central to current drug discovery processes and public
health fields. Analyzing the DTI profiling of the drugs helps to infer drug indications, adverse …