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istar: A Web Platform for Large-Scale Protein-Ligand Docking

https://doi.org/10.1371/journal.pone.0085678
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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Automated docking using a Lamarckian genetic algorithm and an empirical binding free energy function
inferredcites →https://doi.org/10.1002/jcc.21256openalex-snapshot
AutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility
inferredcites →https://doi.org/10.1002/jcc.21334openalex-snapshot
AutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading
inferredcites →https://doi.org/10.1002/prot.20512openalex-snapshot
Binding MOAD (Mother Of All Databases)
inferredcites →https://doi.org/10.1007/10822.1573-4951openalex-snapshot
Journal of Computer-Aided Molecular Design
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PLANTS: Application of Ant Colony Optimization to Structure-Based Drug Design
inferredcites →https://doi.org/10.1007/978-3-642-34123-6_2openalex-snapshot
Machine Learning Scoring Functions Based on Random Forest and Support Vector Regression
inferredcites →https://doi.org/10.1007/s10822-010-9352-6openalex-snapshot
Ligand docking and binding site analysis with PyMOL and Autodock/Vina
inferredcites →https://doi.org/10.1007/s10822-011-9438-9openalex-snapshot
iScreen: world’s first cloud-computing web server for virtual screening and de novo drug design based on TCM database@Taiwan
inferredcites →https://doi.org/10.1016/j.drudis.2011.07.006openalex-snapshot
Structure-based drug design to augment hit discovery
inferredcites →https://doi.org/10.1017/9781108993456.011openalex-snapshot
Numerical optimization
inferredcites →https://doi.org/10.1021/ci049714+openalex-snapshot
ZINC − A Free Database of Commercially Available Compounds for Virtual Screening
inferredcites →https://doi.org/10.1021/ci100459bopenalex-snapshot
Accelerating Molecular Docking Calculations Using Graphics Processing Units
inferredcites →https://doi.org/10.1021/ci200057eopenalex-snapshot
Comments on “Leave-Cluster-Out Cross-Validation Is Appropriate for Scoring Functions Derived from Diverse Protein Data Sets”: Significance for the Validation of Scoring Functions
inferredcites →https://doi.org/10.1021/ci200082topenalex-snapshot
CSAR Benchmark Exercise of 2010: Selection of the Protein–Ligand Complexes
inferredcites →https://doi.org/10.1021/ci200363qopenalex-snapshot
Correction to CSAR Benchmark Exercise of 2010: Selection of the Protein–Ligand Complexes
inferredcites →https://doi.org/10.1021/ci2004779openalex-snapshot
Integrating Medicinal Chemistry, Organic/Combinatorial Chemistry, and Computational Chemistry for the Discovery of Selective Estrogen Receptor Modulators with F orecaster , a Novel Platform for Drug Discovery
inferredcites →https://doi.org/10.1021/ci3001277openalex-snapshot
ZINC: A Free Tool to Discover Chemistry for Biology
inferredcites →https://doi.org/10.1021/ci300493wopenalex-snapshot
ID-Score: A New Empirical Scoring Function Based on a Comprehensive Set of Descriptors Related to Protein–Ligand Interactions
inferredcites →https://doi.org/10.1021/ci6002637openalex-snapshot
Docking Ligands into Flexible and Solvated Macromolecules. 1. Development and Validation of FITTED 1.0
inferredcites →https://doi.org/10.1021/ci800298zopenalex-snapshot
Empirical Scoring Functions for Advanced Protein−Ligand Docking with PLANTS
inferredcites →https://doi.org/10.1021/ci9000053openalex-snapshot
Comparative Assessment of Scoring Functions on a Diverse Test Set
inferredcites →https://doi.org/10.1021/ci900397topenalex-snapshot
Protein Pockets: Inventory, Shape, and Comparison
inferredcites →https://doi.org/10.1021/jm030580lopenalex-snapshot
The PDBbind Database: Collection of Binding Affinities for Protein−Ligand Complexes with Known Three-Dimensional Structures
inferredcites →https://doi.org/10.1021/jm0341913openalex-snapshot
Discovery of a Novel Binding Trench in HIV Integrase
inferredcites →https://doi.org/10.1021/jm048957qopenalex-snapshot
The PDBbind Database: Methodologies and Updates
inferredcites →https://doi.org/10.1021/jm0492296openalex-snapshot
LEA3D: A Computer-Aided Ligand Design for Structure-Based Drug Design
inferredcites →https://doi.org/10.1021/jm9006966openalex-snapshot
Automated Docking Screens: A Feasibility Study
inferredcites →https://doi.org/10.1023/a:1010933404324openalex-snapshot
Random Forests
inferredcites →https://doi.org/10.1023/a:1016357811882openalex-snapshot
Further development and validation of empirical scoring functions for structure-based binding affinity prediction
inferredcites →https://doi.org/10.1038/nsb1203-980openalex-snapshot
Announcing the worldwide Protein Data Bank
inferredcites →https://doi.org/10.1038/sj.bjp.0707515openalex-snapshot
Towards the development of universal, fast and highly accurate docking/scoring methods: a long way to go
inferredcites →https://doi.org/10.1093/bioinformatics/btq112openalex-snapshot
A machine learning approach to predicting protein–ligand binding affinity with applications to molecular docking
inferredcites →https://doi.org/10.1093/bioinformatics/btq149openalex-snapshot
VSDocker: a tool for parallel high-throughput virtual screening using AutoDock on Windows-based computer clusters
inferredcites →https://doi.org/10.1093/nar/28.1.235openalex-snapshot
The Protein Data Bank
inferredcites →https://doi.org/10.1093/nar/gkm911openalex-snapshot
Binding MOAD, a high-quality protein ligand database
inferredcites →https://doi.org/10.1098/rsif.2012.0569openalex-snapshot
Hierarchical virtual screening for the discovery of new molecular scaffolds in antibacterial hit identification
inferredcites →https://doi.org/10.1107/s0021889807011053openalex-snapshot
Parallel implementation ofAutoDock
inferredcites →https://doi.org/10.1109/cibcb.2012.6217214openalex-snapshot
idock: A multithreaded virtual screening tool for flexible ligand docking
inferredcites →https://doi.org/10.1111/j.1747-0285.2011.01313.xopenalex-snapshot
Selective Flexibility of Side‐Chain Residues Improves VEGFR‐2 Docking Score using AutoDock Vina
inferredcites →https://doi.org/10.1186/1756-0500-4-445openalex-snapshot
AUDocker LE: A GUI for virtual screening with AUTODOCK Vina
inferredcites →https://doi.org/10.1186/1758-2946-2-10openalex-snapshot
MOLA: a bootable, self-configuring system for virtual screening using AutoDock4/Vina on computer clusters
inferredcites →https://doi.org/10.1186/1758-2946-3-12openalex-snapshot
Multilevel Parallelization of AutoDock 4.2
inferredcites →https://doi.org/10.1261/rna.1563609openalex-snapshot
DOCK 6: Combining techniques to model RNA–small molecule complexes
inferredcites →https://doi.org/10.1371/journal.pone.0011955openalex-snapshot
Virtual Screening for HIV Protease Inhibitors: A Comparison of AutoDock 4 and Vina
inferredcites →https://doi.org/10.1371/journal.pone.0015939openalex-snapshot
TCM Database@Taiwan: The World's Largest Traditional Chinese Medicine Database for Drug Screening In Silico
inferredcites →https://doi.org/10.2307/2288003openalex-snapshot
Classification and Regression Trees.
inferredcites →https://doi.org/10.2307/2530946openalex-snapshot
Classification and Regression Trees.
inferredcites →https://doi.org/10.6026/97320630006387openalex-snapshot
VSDK: Virtual screening of small molecules using AutoDock Vina on Windows platform

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Role of vitamin C in the protection of the gum and implants in the human body: theoretical and experimental studies
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Theoretical and experimental studies of copper(II) and nickel(II) complexes derived from the ligand N-benzyl benzimidazole as corrosion inhibitors in ionic and bacterial media
inferred← citeshttps://doi.org/10.2174/0929867327666200515101820openalex-snapshot
Machine Learning-Based Scoring Functions, Development and Applications with SAnDReS
inferred← citeshttps://doi.org/10.2174/0929867328666210210121320openalex-snapshot
The Impact of Crystallographic Data for the Development of Machine Learning Models to Predict Protein-Ligand Binding Affinity
inferred← citeshttps://doi.org/10.2174/0929867328666210329094111openalex-snapshot
Protein-Ligand Docking Simulations with AutoDock4 Focused on the Main Protease of SARS-CoV-2
inferred← citeshttps://doi.org/10.2174/0929867328666210806105810openalex-snapshot
Computational Prediction of Binding Affinity for CDK2-ligand Complexes. A Protein Target for Cancer Drug Discovery
inferred← citeshttps://doi.org/10.2174/0929867330666230321103731openalex-snapshot
Exploring Scoring Function Space: Developing Computational Models for Drug Discovery
inferred← citeshttps://doi.org/10.2174/1875533xmta25njqu4openalex-snapshot
Machine Learning-Based Scoring Functions, Development and Applications with SAnDReS
inferred← citeshttps://doi.org/10.24321/0019.5138.202155openalex-snapshot
Ascorbic Acid as an Inhibitor for SARS-CoV-2 Virus Reproduction: A Theoretical Approach
inferred← citeshttps://doi.org/10.25004/ijpsdr.2020.120108openalex-snapshot
In silico Screening of Zinc Database for Discovery of Novel Urease Inhibitors as a Remedy to Gastro-Duodenal Ulcer Caused by Helicobacter pylori
inferred← citeshttps://doi.org/10.26434/chemrxiv-2023-6h2c9-v2openalex-snapshot
DOCK Blaster 2.0 - Automated Optimization of Docking Models using Retrospective Docking
inferred← citeshttps://doi.org/10.3389/fonc.2017.00288openalex-snapshot
Identification of Clinically Approved Drugs Indacaterol and Canagliflozin for Repurposing to Treat Epidermal Growth Factor Tyrosine Kinase Inhibitor-Resistant Lung Cancer
inferred← citeshttps://doi.org/10.3389/fphar.2021.691769openalex-snapshot
Discovery of a New CDK4/6 and PI3K/AKT Multiple Kinase Inhibitor Aminoquinol for the Treatment of Hepatocellular Carcinoma
inferred← citeshttps://doi.org/10.3389/fphar.2022.874746openalex-snapshot
Drugsniffer: An Open Source Workflow for Virtually Screening Billions of Molecules for Binding Affinity to Protein Targets
inferred← citeshttps://doi.org/10.3390/ijms26178146openalex-snapshot
Aptamers as Potential Inhibitors of Ethylene Biosynthesis: Identification and In Silico Selection
inferred← citeshttps://doi.org/10.3390/ijms27031260openalex-snapshot
Integrated WGCNA of lncRNA-mRNA Networks Identifies Novel Hub Genes and Potential Therapeutic Agents for Liver Cirrhosis via Molecular Docking Validation
inferred← citeshttps://doi.org/10.3390/molecules200610947openalex-snapshot
Low-Quality Structural and Interaction Data Improves Binding Affinity Prediction via Random Forest
inferred← citeshttps://doi.org/10.3390/molecules25225293openalex-snapshot
Virtual Screening and In Vitro Evaluation of PD-L1 Dimer Stabilizers for Uncoupling PD-1/PD-L1 Interaction from Natural Products
inferred← citeshttps://doi.org/10.3892/mmr.2015.4310openalex-snapshot
Adapalene inhibits the activity of cyclin-dependent kinase 2 in colorectal carcinoma
inferred← citeshttps://doi.org/10.3892/or.2018.6533openalex-snapshot
Discovery of rafoxanide as a dual CDK4/6 inhibitor for the treatment of skin cancer
inferred← citeshttps://doi.org/10.4018/978-1-5225-0115-2.ch001openalex-snapshot
Molecular Docking at a Glance
inferred← citeshttps://doi.org/10.4018/978-1-5225-0549-5.ch030openalex-snapshot
Molecular Docking at a Glance
inferred← citeshttps://doi.org/10.4310/cis.241021221101openalex-snapshot
Docking strategies for predicting protein-ligand interactions and their application to structure-based drug design
inferred← citeshttps://doi.org/10.48550/arxiv.1704.05883openalex-snapshot
Rigidity strengthening is a vital mechanism for protein-ligand binding
inferred← citeshttps://doi.org/10.7150/ijbs.32625openalex-snapshot
The antipsychotic agent flupentixol is a new PI3K inhibitor and potential anticancer drug for lung cancer
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