A deep learning method for repurposing antiviral drugs against new viruses via multi-view nonnegative matrix factorization and its application to SARS-CoV-2

Drug repositioning based on similarity constrained probabilistic matrix factorization: COVID-19 as a case study

(2021) Yajie Meng et al.   APPLIED SOFT COMPUTING

Structure of the SARS-CoV-2 RNA-dependent RNA polymerase in the presence of favipiravir-RTP

(2021) Katerina Naydenova et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Indicator Regularized Non-Negative Matrix Factorization Method-Based Drug Repurposing for COVID-19

(2021) Xianfang Tang et al.   Frontiers in Immunology

Prioritizing antiviral drugs against SARS-CoV-2 by integrating viral complete genome sequences and drug chemical structures

(2021) Lihong Peng et al.   Scientific Reports

SCMFMDA: Predicting microRNA-disease associations based on similarity constrained matrix factorization

(2021) Lei Li et al.   PLoS Computational Biology

Collaborative city digital twin for the COVID-19 pandemic: A federated learning solution

(2021) Junjie Pang et al.   TSINGHUA SCIENCE AND TECHNOLOGY

Vicinal Vertex Allocation for Matrix Factorization in Networks

(2021) Tiantian He et al.   IEEE Transactions on Cybernetics

Remdesivir and chloroquine effectively inhibit the recently emerged novel coronavirus (2019-nCoV) in vitro

(2020) Manli Wang et al.   CELL RESEARCH

Discovery and development of safe-in-man broad-spectrum antiviral agents

(2020) Petter I. Andersen et al.   INTERNATIONAL JOURNAL OF INFECTIOUS DISEASES

Clinical Characteristics of Coronavirus Disease 2019 in China

(2020) Wei-jie Guan et al.   NEW ENGLAND JOURNAL OF MEDICINE

A Novel Coronavirus from Patients with Pneumonia in China, 2019

(2020) Na Zhu et al.   NEW ENGLAND JOURNAL OF MEDICINE

SARS-CoV-2 Cell Entry Depends on ACE2 and TMPRSS2 and Is Blocked by a Clinically Proven Protease Inhibitor

(2020) Markus Hoffmann et al.   CELL

Novel coronavirus treatment with ribavirin: Groundwork for an evaluation concerning COVID-19

(2020) Jahan S. Khalili et al.   JOURNAL OF MEDICAL VIROLOGY

Chloroquine hype is derailing the search for coronavirus treatments

(2020) Heidi Ledford   NATURE

Breakthrough: Chloroquine phosphate has shown apparent efficacy in treatment of COVID-19 associated pneumonia in clinical studies

(2020) Jianjun Gao et al.   BioScience Trends

World Health Organization declares global emergency: A review of the 2019 novel coronavirus (COVID-19)

(2020) Catrin Sohrabi et al.   International Journal of Surgery

HiSCF: leveraging higher-order structures for clustering analysis in biological networks

(2020) Lun Hu et al.   BIOINFORMATICS

Predicting drug–disease associations through layer attention graph convolutional network

(2020) Zhouxin Yu et al.   BRIEFINGS IN BIOINFORMATICS

Remdesivir against COVID-19 and Other Viral Diseases

(2020) Jakob J. Malin et al.   CLINICAL MICROBIOLOGY REVIEWS

Database resources of the National Center for Biotechnology Information

(2020) Eric W Sayers et al.   NUCLEIC ACIDS RESEARCH

Inferring microenvironmental regulation of gene expression from single-cell RNA sequencing data using scMLnet with an application to COVID-19

(2020) Jinyu Cheng et al.   BRIEFINGS IN BIOINFORMATICS

Exploiting higher-order patterns for community detection in attributed graphs

(2020) Lun Hu et al.   INTEGRATED COMPUTER-AIDED ENGINEERING

Drug repositioning based on bounded nuclear norm regularization

(2019) Mengyun Yang et al.   BIOINFORMATICS

Molecular Docking: Shifting Paradigms in Drug Discovery

(2019) Luca Pinzi et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Deep learning for drug–drug interaction extraction from the literature: a review

(2019) Tianlin Zhang et al.   BRIEFINGS IN BIOINFORMATICS

Contextual Correlation Preserving Multiview Featured Graph Clustering

(2019) Tiantian He et al.   IEEE Transactions on Cybernetics

Computational drug repositioning using low-rank matrix approximation and randomized algorithms

(2018) Huimin Luo et al.   BIOINFORMATICS

DrugBank 5.0: a major update to the DrugBank database for 2018

(2017) David S Wishart et al.   NUCLEIC ACIDS RESEARCH

Drug repositioning based on comprehensive similarity measures and Bi-Random walk algorithm

(2016) Huimin Luo et al.   BIOINFORMATICS

Protease inhibitors targeting coronavirus and filovirus entry

(2015) Yanchen Zhou et al.   ANTIVIRAL RESEARCH

A survey of current trends in computational drug repositioning

(2015) Jiao Li et al.   BRIEFINGS IN BIOINFORMATICS

Phenothiazines Inhibit Hepatitis C Virus Entry, Likely by Increasing the Fluidity of Cholesterol-Rich Membranes

(2013) Ana M. Chamoun-Emanuelli et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Middle East Respiratory Syndrome Coronavirus (MERS-CoV): Announcement of the Coronavirus Study Group

(2013) R. J. de Groot et al.   JOURNAL OF VIROLOGY

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Cobicistat Boosts the Intestinal Absorption of Transport Substrates, Including HIV Protease Inhibitors and GS-7340,In Vitro

(2012) Eve-Irene Lepist et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Novel 1,2,4-triazole and imidazole derivatives of l-ascorbic and imino-ascorbic acid: Synthesis, anti-HCV and antitumor activity evaluations

(2012) Karlo Wittine et al.   BIOORGANIC & MEDICINAL CHEMISTRY

Simultaneous Treatment of Human Bronchial Epithelial Cells with Serine and Cysteine Protease Inhibitors Prevents Severe Acute Respiratory Syndrome Coronavirus Entry

(2012) M. Kawase et al.   JOURNAL OF VIROLOGY

PREDICT: a method for inferring novel drug indications with application to personalized medicine

(2011) A. Gottlieb et al.   Molecular Systems Biology

AutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility

(2009) Garrett M. Morris et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Pandemic Potential of a Strain of Influenza A (H1N1): Early Findings

(2009) C. Fraser et al.   SCIENCE

The Graph Neural Network Model

(2008) F. Scarselli et al.   IEEE TRANSACTIONS ON NEURAL NETWORKS