DTI-MLCD: predicting drug-target interactions using multi-label learning with community detection method

SPVec: A Word2vec-Inspired Feature Representation Method for Drug-Target Interaction Prediction

(2020) Yu-Fang Zhang et al.   Frontiers in Chemistry

Coupled matrix–matrix and coupled tensor–matrix completion methods for predicting drug–target interactions

(2020) Maryam Bagherian et al.   BRIEFINGS IN BIOINFORMATICS

Computational Model Development of Drug-Target Interaction Prediction: A Review

(2019) Qi Zhao et al.   CURRENT PROTEIN & PEPTIDE SCIENCE

Predicting Drug-Target Interaction Network Using Deep Learning Model

(2019) Jiaying You et al.   COMPUTATIONAL BIOLOGY AND CHEMISTRY

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

(2019) Ingoo Lee et al.   PLoS Computational Biology

Predicting Drug–Target Interaction Using a Novel Graph Neural Network with 3D Structure-Embedded Graph Representation

(2019) Jaechang Lim et al.   Journal of Chemical Information and Modeling

Comparison of Target Features for Predicting Drug-Target Interactions by Deep Neural Network Based on Large-Scale Drug-Induced Transcriptome Data

(2019) Hanbi Lee et al.   Pharmaceutics

Predicting Drug-Target Interactions With Multi-Label Classification and Label Partitioning

(2019) Konstantinos Pliakos et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Drug-Target Interactions: Prediction Methods and Applications

(2018) Shanmugam Anusuya et al.   CURRENT PROTEIN & PEPTIDE SCIENCE

RFDT: A Rotation Forest-based Predictor for Predicting Drug-Target Interactions Using Drug Structure and Protein Sequence Information

(2018) Lei Wang et al.   CURRENT PROTEIN & PEPTIDE SCIENCE

Binary relevance for multi-label learning: an overview

(2018) Min-Ling Zhang et al.   Frontiers of Computer Science

Deep learning-based transcriptome data classification for drug-target interaction prediction

(2018) Lingwei Xie et al.   BMC GENOMICS

BE-DTI’: Ensemble framework for drug target interaction prediction using dimensionality reduction and active learning

(2018) Aman Sharma et al.   COMPUTER METHODS AND PROGRAMS IN BIOMEDICINE

Recent advances in the machine learning-based drug-target interaction prediction

(2018) Wen Zhang et al.   CURRENT DRUG METABOLISM

Machine Learning for Drug-Target Interaction Prediction

(2018) Ruolan Chen et al.   MOLECULES

Predicting drug-target interactions using Lasso with random forest based on evolutionary information and chemical structure

(2018) Han Shi et al.   GENOMICS

UniProt: a worldwide hub of protein knowledge

(2018)   NUCLEIC ACIDS RESEARCH

The Pfam protein families database in 2019

(2018) Sara El-Gebali et al.   NUCLEIC ACIDS RESEARCH

Drug-Target Interaction Prediction with Graph Regularized Matrix Factorization

(2017) Ali Ezzat et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Identification of drug-target interactions via multiple information integration

(2017) Yijie Ding et al.   INFORMATION SCIENCES

Deep-Learning-Based Drug–Target Interaction Prediction

(2017) Ming Wen et al.   JOURNAL OF PROTEOME RESEARCH

Drug-target interaction prediction using ensemble learning and dimensionality reduction

(2017) Ali Ezzat et al.   METHODS

Prediction of Drug–Target Interaction Networks from the Integration of Protein Sequences and Drug Chemical Structures

(2017) Fan-Rong Meng et al.   MOLECULES

Drug-Target Interaction Prediction through Label Propagation with Linear Neighborhood Information

(2017) Wen Zhang et al.   MOLECULES

DrugRPE: Random projection ensemble approach to drug-target interaction prediction

(2017) Jun Zhang et al.   NEUROCOMPUTING

A network integration approach for drug-target interaction prediction and computational drug repositioning from heterogeneous information

(2017) Yunan Luo et al.   Nature Communications

iDTI-ESBoost: Identification of Drug Target Interaction Using Evolutionary and Structural Features with Boosting

(2017) Farshid Rayhan et al.   Scientific Reports

SELF-BLM: Prediction of drug-target interactions via self-training SVM

(2017) Jongsoo Keum et al.   PLoS One

DrugE-Rank: improving drug–target interaction prediction of new candidate drugs or targets by ensemble learning to rank

(2016) Qingjun Yuan et al.   BIOINFORMATICS

Drug-target interaction prediction via class imbalance-aware ensemble learning

(2016) Ali Ezzat et al.   BMC BIOINFORMATICS

Predicting drug target interactions using meta-path-based semantic network analysis

(2016) Gang Fu et al.   BMC BIOINFORMATICS

A multiple kernel learning algorithm for drug-target interaction prediction

(2016) André C. A. Nascimento et al.   BMC BIOINFORMATICS

How Is a Data-Driven Approach Better than Random Choice in Label Space Division for Multi-Label Classification?

(2016) Piotr Szymański et al.   Entropy

Boosting compound-protein interaction prediction by deep learning

(2016) Kai Tian et al.   METHODS

Prediction of drug–target interaction by label propagation with mutual interaction information derived from heterogeneous network

(2016) Xiao-Ying Yan et al.   Molecular BioSystems

Drug–target interaction prediction from PSSM based evolutionary information

(2016) Zaynab Mousavian et al.   JOURNAL OF PHARMACOLOGICAL AND TOXICOLOGICAL METHODS

Neighborhood Regularized Logistic Matrix Factorization for Drug-Target Interaction Prediction

(2016) Yong Liu et al.   PLoS Computational Biology

Identification of drug–target interaction from interactome network with ‘guilt-by-association’ principle and topology features

(2015) Zhan-Chao Li et al.   BIOINFORMATICS

Improving compound–protein interaction prediction by building up highly credible negative samples

(2015) Hui Liu et al.   BIOINFORMATICS

DT-Web: a web-based application for drug-target interaction and drug combination prediction through domain-tuned network-based inference

(2015) Salvatore Alaimo et al.   BMC Systems Biology

Drug–target interaction prediction: databases, web servers and computational models

(2015) Xing Chen et al.   BRIEFINGS IN BIOINFORMATICS

Drug–target interaction prediction through domain-tuned network-based inference

(2013) Salvatore Alaimo et al.   BIOINFORMATICS

Predicting drug-target interactions using restricted Boltzmann machines

(2013) Yuhao Wang et al.   BIOINFORMATICS

A Review on Multi-Label Learning Algorithms

(2013) Min-Ling Zhang et al.   IEEE TRANSACTIONS ON KNOWLEDGE AND DATA ENGINEERING

Network-Based Drug Ranking and Repositioning with Respect to DrugBank Therapeutic Categories

(2013) Matteo Re et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Predicting Drug–Target Interactions Using Probabilistic Matrix Factorization

(2013) Murat Can Cobanoglu et al.   Journal of Chemical Information and Modeling

Predicting drug–target interaction networks of human diseases based on multiple feature information

(2013) Weiming Yu et al.   PHARMACOGENOMICS

Drug Target Prediction and Repositioning Using an Integrated Network-Based Approach

(2013) Dorothea Emig et al.   PLoS One

Identification of chemogenomic features from drug-target interaction networks using interpretable classifiers

(2012) Y. Tabei et al.   BIOINFORMATICS

Predicting drug-target interactions from chemical and genomic kernels using Bayesian matrix factorization

(2012) M. Gonen   BIOINFORMATICS

Drug–target interaction prediction by learning from local information and neighbors

(2012) Jian-Ping Mei et al.   BIOINFORMATICS

PaDEL-DDPredictor: Open-source software for PD-PK-T prediction

(2012) Yuye He et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Comparative evaluation of community detection algorithms: a topological approach

(2012) Günce Keziban Orman et al.   JOURNAL OF STATISTICAL MECHANICS-THEORY AND EXPERIMENT

Drug–target interaction prediction by random walk on the heterogeneous network

(2012) Xing Chen et al.   Molecular BioSystems

Classification Models for Predicting Cytochrome P450 Enzyme-Substrate Selectivity

(2012) Tao Zhang et al.   Molecular Informatics

Integrating Spectral Kernel Learning and Constraints in Semi-Supervised Classification

(2012) Fanhua Shang et al.   NEURAL PROCESSING LETTERS

Prediction of Drug-Target Interactions and Drug Repositioning via Network-Based Inference

(2012) Feixiong Cheng et al.   PLoS Computational Biology

Gaussian interaction profile kernels for predicting drug–target interaction

(2011) Twan van Laarhoven et al.   BIOINFORMATICS

Modelling of inquiry diagnosis for coronary heart disease in traditional Chinese medicine by using multi-label learning

(2011) Guo-Ping Liu et al.   BMC Complementary and Alternative Medicine

Classifier chains for multi-label classification

(2011) Jesse Read et al.   MACHINE LEARNING

Drug-target interaction prediction from chemical, genomic and pharmacological data in an integrated framework

(2010) Y. Yamanishi et al.   BIOINFORMATICS

Semi-supervised drug-protein interaction prediction from heterogeneous biological spaces

(2010) Zheng Xia et al.   BMC Systems Biology

The map equation

(2010) M. Rosvall et al.   European Physical Journal-Special Topics

Random k-Labelsets for Multilabel Classification

(2010) Grigorios Tsoumakas et al.   IEEE TRANSACTIONS ON KNOWLEDGE AND DATA ENGINEERING

Extended-Connectivity Fingerprints

(2010) David Rogers et al.   Journal of Chemical Information and Modeling

Supervised prediction of drug–target interactions using bipartite local models

(2009) Kevin Bleakley et al.   BIOINFORMATICS

PubChem as a Source of Polypharmacology

(2009) Bin Chen et al.   Journal of Chemical Information and Modeling

Protein-ligand interaction prediction: an improved chemogenomics approach

(2008) Laurent Jacob et al.   BIOINFORMATICS

Prediction of drug-target interaction networks from the integration of chemical and genomic spaces

(2008) Y. Yamanishi et al.   BIOINFORMATICS

Pybel: a Python wrapper for the OpenBabel cheminformatics toolkit

(2008) Noel M O'Boyle et al.   Chemistry Central Journal

Fast unfolding of communities in large networks

(2008) Vincent D Blondel et al.   JOURNAL OF STATISTICAL MECHANICS-THEORY AND EXPERIMENT