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Ligand-Based Virtual Screening Approach Using a New Scoring Function

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What this work says

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

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A fast method of molecular shape comparison: A simple application of a Gaussian description of molecular shape
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Protein docking using spherical polar Fourier correlations
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Using quaternions to calculate RMSD
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Rotational superposition and least squares: The SVD and quaternions approaches yield identical results. Reply to the preceding comment by G. Kneller
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Ultrafast shape recognition to search compound databases for similar molecular shapes
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Modeling G protein‐coupled receptors for structure‐based drug discovery using low‐frequency normal modes for refinement of homology models: Application to H3 antagonists
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Assembly of protein tertiary structures from fragments with similar local sequences using simulated annealing and bayesian scoring functions
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Molecular shape and electrostatics in the encoding of relevant chemical information
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Evaluation of the performance of 3D virtual screening protocols: RMSD comparisons, enrichment assessments, and decoy selection—What can we learn from earlier mistakes?
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What do we know and when do we know it?
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Molecular similarity and diversity in chemoinformatics: From theory to applications
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Novel human mPGES-1 inhibitors identified through structure-based virtual screening
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Successful shape-Based virtual screening: The discovery of a potent inhibitor of the type I TGFβ receptor kinase (TβRI)
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Discovery of novel SecA inhibitors of Candidatus Liberibacter asiaticus by structure based design
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Quaternions in molecular modeling
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Ultrafast shape recognition: Evaluating a new ligand-based virtual screening technology
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A comparison of ligand based virtual screening methods and application to corticotropin releasing factor 1 receptor
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Structure-based virtual screening: an overview
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Lead discovery using molecular docking
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Use of Catalyst Pharmacophore Models for Screening of Large Combinatorial Libraries
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Lead Hopping Using SVM and 3D Pharmacophore Fingerprints
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Rapid Shape-Based Ligand Alignment and Virtual Screening Method Based on Atom/Feature-Pair Similarities and Volume Overlap Scoring
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NNScore 2.0: A Neural-Network Receptor–Ligand Scoring Function
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Evaluating Virtual Screening Methods: Good and Bad Metrics for the “Early Recognition” Problem
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Flexophore, a New Versatile 3D Pharmacophore Descriptor That Considers Molecular Flexibility
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ShaEP: Molecular Overlay Based on Shape and Electrostatic Potential
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Comparative Evaluation of 3D Virtual Ligand Screening Methods: Impact of the Molecular Alignment on Enrichment
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USING THE METHOD OF STEEPEST DESCENT
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SILANE COUPLING AGENTS
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A Gaussian Description of Molecular Shape
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Protein-Based Virtual Screening of Chemical Databases. 1. Evaluation of Different Docking/Scoring Combinations
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inferredcites →https://doi.org/10.1021/jm020503aopenalex-snapshot
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Comparison of Shape-Matching and Docking as Virtual Screening Tools
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Benchmarking Sets for Molecular Docking
inferredcites →https://doi.org/10.1021/jp953707uopenalex-snapshot
A Gaussian Description of Molecular Shape
inferredcites →https://doi.org/10.1023/a:1008194019144openalex-snapshot
Computational methods for the structural alignment of molecules
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Structural basis for induced formation of the inflammatory mediator prostaglandin E 2
inferredcites →https://doi.org/10.1080/10629360802085041openalex-snapshot
QSAR studies using the parashift system†
inferredcites →https://doi.org/10.1093/bioinformatics/16.5.412openalex-snapshot
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inferredcites →https://doi.org/10.1093/protein/gzg081openalex-snapshot
PROSPECT II: protein structure prediction program for genome-scale applications
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inferredcites →https://doi.org/10.1126/science.1150577openalex-snapshot
High-Resolution Crystal Structure of an Engineered Human β 2 -Adrenergic G Protein–Coupled Receptor
inferredcites →https://doi.org/10.1126/science.1164772openalex-snapshot
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inferredcites →https://doi.org/10.1126/science.132.3434.1115openalex-snapshot
A Computer Program for Classifying Plants
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Crystal Structure of Rhodopsin: A G Protein-Coupled Receptor
inferredcites →https://doi.org/10.1148/radiology.143.1.7063747openalex-snapshot
The meaning and use of the area under a receiver operating characteristic (ROC) curve.
inferredcites →https://doi.org/10.1186/1758-2946-1-1openalex-snapshot
Grand challenges for cheminformatics
inferredcites →https://doi.org/10.1186/1758-2946-1-14openalex-snapshot
Optimal assignment methods for ligand-based virtual screening
inferredcites →https://doi.org/10.1590/s0103-50532002000600008openalex-snapshot
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Shapes of Things: Computer Modeling of Molecular Shape in Drug Discovery
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Discovery of potential pancreatic cholesterol esterase inhibitors using pharmacophore modelling, virtual screening, and optimization studies

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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An overview of molecular fingerprint similarity search in virtual screening
inferred← citeshttps://doi.org/10.15388/20-infor424openalex-snapshot
Optimizing Electrostatic Similarity for Virtual Screening: A New Methodology
inferred← citeshttps://doi.org/10.15388/21-infor469openalex-snapshot
MultiPharm-DT: A Multi-Objective Decision Tool for Ligand-Based Virtual Screening Problems
inferred← citeshttps://doi.org/10.15388/23-infor535openalex-snapshot
An Effective Solution for Drug Discovery Based on the Tangram Meta-Heuristic and Compound Filtering
inferred← citeshttps://doi.org/10.18596/jotcsa.927426openalex-snapshot
Pharmacophore Modeling in Drug Discovery: Methodology and Current Status
inferred← citeshttps://doi.org/10.2142/biophysico.13.0_149openalex-snapshot
Importance of consensus region of multiple-ligand templates in a virtual screening method
inferred← citeshttps://doi.org/10.2174/1381612829666230428110542openalex-snapshot
A Review on Artificial Intelligence Approaches and Rational Approaches in Drug Discovery
inferred← citeshttps://doi.org/10.2174/1386207318666150305121841openalex-snapshot
A Ligand-Based Virtual Screening Approach to Identify Small Molecules as hERG Channel Activators
inferred← citeshttps://doi.org/10.2174/1570180820666230725110021openalex-snapshot
In vitro Antibacterial Activity of Dye Compounds
inferred← citeshttps://doi.org/10.2174/1570180820666230731144315openalex-snapshot
In vitro and In silico Antibacterial Evaluation of N-Methyl-2-phenylmaleimides
inferred← citeshttps://doi.org/10.2174/1573409914666181003153249openalex-snapshot
3D-QSAR and Molecular Docking Studies on Oxadiazole Substituted Benzimidazole Derivatives: Validation of Experimental Inhibitory Potencies Towards COX-2
inferred← citeshttps://doi.org/10.2174/9789815223019124010007openalex-snapshot
Virtual Tools and Screening Designs for Drug Discovery and New Drug Development
inferred← citeshttps://doi.org/10.2174/9789815223019124010010openalex-snapshot
Experimental Tools as an “Alternative to Animal Research” in Pharmacology
inferred← citeshttps://doi.org/10.22541/au.169087572.21737129/v1openalex-snapshot
Physiology of GPCRs in the nervous system and the contribution of orphan GPCRs
inferred← citeshttps://doi.org/10.3389/fchem.2018.00315openalex-snapshot
Advances in the Development of Shape Similarity Methods and Their Application in Drug Discovery
inferred← citeshttps://doi.org/10.3389/fchem.2020.00343openalex-snapshot
Structure-Based Virtual Screening: From Classical to Artificial Intelligence
inferred← citeshttps://doi.org/10.3389/fchem.2021.662688openalex-snapshot
Applications of Virtual Screening in Bioprospecting: Facts, Shifts, and Perspectives to Explore the Chemo-Structural Diversity of Natural Products
inferred← citeshttps://doi.org/10.3389/fphar.2019.00519openalex-snapshot
A New Pharmacophore Model for the Design of Sigma-1 Ligands Validated on a Large Experimental Dataset
inferred← citeshttps://doi.org/10.3390/ijms15021826openalex-snapshot
Exploring the Molecular Basis for Selective Binding of Homoserine Dehydrogenase from Mycobacterium leprae TN toward Inhibitors: A Virtual Screening Study
inferred← citeshttps://doi.org/10.3390/ijms23010010openalex-snapshot
Overcoming Depression with 5-HT2A Receptor Ligands
inferred← citeshttps://doi.org/10.3390/ph15020132openalex-snapshot
Evaluation of Docking Machine Learning and Molecular Dynamics Methodologies for DNA-Ligand Systems
inferred← citeshttps://doi.org/10.4018/ijoci.312223openalex-snapshot
A Systematic Literature Review of the Current Status and Future Prospects of Machine Learning Methods and Techniques Applied to Novel Drug Discovery
inferred← citeshttps://doi.org/10.4155/fmc-2019-0158openalex-snapshot
Virtual Screening of Antibacterial Compounds By Similarity Search of Enoyl-ACP Reductase (FabI) Inhibitors
inferred← citeshttps://doi.org/10.48550/arxiv.1905.12033openalex-snapshot
Leveraging binding-site structure for drug discovery with point-cloud methods
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Drug Repurposing Techniques in Viral Diseases
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Computational approaches for identifying bioactive compounds inhibiting SARS-CoV-2 main protease
inferred← citeshttps://doi.org/10.70675/892e03f0za9b4z4beezaa70z3698e17bbf40openalex-snapshot
Développement de nouveaux agents anticancéreux inhibiteurs de la syntenin
inferred← citeshttps://doi.org/10.7324/japs.2020.10116openalex-snapshot
In silico studies on pyrazine derivatives for identifying potential inhibitors of PIM-1 kinase
Editorial review for independent work. ICSAC — the Institute for Complexity Science and Advanced Computing — runs a structured editorial panel for researchers publishing outside journals, and publishes on CiteStamp rails. Submission is free and goes through ORCID: icsacinstitute.org/submit.