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Analysis of Conformational Coverage. 1. Validation and Estimation of Coverage

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Computer Processing of Chemical Structure Information
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Generated 3D‐Common Feature Hypotheses Using the HipHop Method For Developing New Topoisomerase I Inhibitors
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Three‐dimensional common‐feature hypotheses of inhibitors of calling behaviour and in vitro [14C]acetate incorporation by pheromone glands of Plodia interpunctella
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3D Pharmacophore Model for Insect Repellent Activity and Discovery of New Repellent Candidates
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Pharmacophore Mapping for Kv1.5 Potassium Channel Blockers
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Calculation of Structural Similarity by the Alignment of Molecular Electrostatic Potentials
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Putative Protection Mechanism of CTL from Killing by Their Own Perforin
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Automated chemical hypothesis generation and database searching with Catalyst®
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Three-dimensional common-feature hypotheses for hypoglycemic flavonyl-2,4-thiazolidinedione derivatives
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Combined chemical feature-based assessment and Bayesian model studies to identify potential inhibitors for Factor Xa
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Minimum requirements of hydrophobic and hydrophilic features in cationic peptide antibiotics (CPAs): pharmacophore generation and validation with cationic steroid antibiotics (CSAs)
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3D QSAR pharmacophore model based on diverse IKKβ inhibitors
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Discovery of potent inhibitors for interleukin-2-inducible T-cell kinase: structure-based virtual screening and molecular dynamics simulation approaches
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Variable selection and specification of robust QSAR models from multicollinear data: arylpiperazinyl derivatives with affinity and selectivity for ?2-adrenoceptors
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Characterization of β3-adrenergic receptor: determination of pharmacophore and 3D QSAR model for β3 adrenergic receptor agonism
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Surrogate docking: structure-based virtual screening at high throughput speed
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A knowledge-based approach to generating diverse but energetically representative ensembles of ligand conformers
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Defining scaffold geometries for interacting with proteins: geometrical classification of secondary structure linking regions
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Conformational analysis of macrocycles: comparing general and specialized methods
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Combined experimental and quantum mechanical elucidation of the synthetically accessible stereoisomers of Hydroxyestradienone (HED), the starting material for vilaprisan synthesis
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Discovery of potent VEGFR2 inhibitors as anticancer target, using pharmacophore based virtual screening, molecular docking and molecular dynamics simulation
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3,5-Disubstituted thiadiazine-2-thiones: New cell-cycle inhibitors
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The N4 nitrogen of pirenzepine is responsible for selective binding of the M1 subtype human muscarinic receptor
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Computer-based screening of compound databases for the identification of novel leads
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Ligand-Based Approaches: Core Molecular Modeling
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Virtual Screening
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2/3D Pharmacophore Definitions and Their Application
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2/3D Pharmacophore definitions and their application
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Antimycobacterial compounds. New pyrrole derivatives of BM212
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Active site binding modes of the β-diketoacids: a multi-active site approach in HIV-1 integrase inhibitor design
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New leads of metallo-β-lactamase inhibitors from structure-based pharmacophore design
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Novel GSK-3β inhibitors from sequential virtual screening
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Novel dimeric aryldiketo containing inhibitors of HIV-1 integrase: Effects of the phenyl substituent and the linker orientation
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Synthesis, biological evaluation and SAR study of novel pyrazole analogues as inhibitors of Mycobacterium tuberculosis
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Antimicrobial and cytotoxic arylazoenamines. Part III: Antiviral activity of selected classes of arylazoenamines
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Identification of novel serotonin 2C receptor ligands by sequential virtual screening
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Design, synthesis, and discovery of novel non-peptide inhibitor of Caspase-3 using ligand based and structure based virtual screening approach
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Pharmacophore modeling, resistant mutant isolation, docking, and MM-PBSA analysis: Combined experimental/computer-assisted approaches to identify new inhibitors of the bovine viral diarrhea virus (BVDV)
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Rose Bengal analogs and vesicular glutamate transporters (VGLUTs)
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In silico discovery of acylated flavonol monorhamnosides from Eriobotrya japonica as natural, small-molecular weight inhibitors of XIAP BIR3
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Computational approach to the identification of novel Aurora-A inhibitors
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Protective activity of (1S,2E,4R,6R,7E,11E)-2,7,11-cembratriene-4,6-diol analogues against diisopropylfluorophosphate neurotoxicity: Preliminary structure–activity relationship and pharmacophore modeling
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Tackling the conformational sampling of larger flexible compounds and macrocycles in pharmacology and drug discovery
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Pharmacophore identification of α1A-adrenoceptor antagonists
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Discovery of potent inhibitors of pseudomonal quorum sensing via pharmacophore modeling and in silico screening
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Pharmacophore identification of KSP inhibitors
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Pharmacophore modeling and in silico screening for new KDR kinase inhibitors
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Pharmacophore identification of Raf-1 kinase inhibitors
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Pharmacophore modeling, molecular docking and molecular dynamics simulations toward identifying lead compounds for Chk1
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Conformations and 3D pharmacophore searching
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Structure-activity relationship study of antimalarial indolo [2,1-b]quinazoline-6,12-diones (tryptanthrins). Three dimensional pharmacophore modeling and identification of new antimalarial candidates
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Ligand-based assessment of factor Xa binding site flexibility via elaborate pharmacophore exploration and genetic algorithm-based QSAR modeling
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Synthesis, antimicrobial activity, pharmacophore analysis of some new 2-(substitutedphenyl/benzyl)-5-[(2-benzofuryl)carboxamido]benzoxazoles
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Important pharmacophoric features of pan PPAR agonists: Common chemical feature analysis and virtual screening
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3-Aryl-2-[1H-benzotriazol-1-yl]acrylonitriles: A novel class of potent tubulin inhibitors
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Pharmacophore identification, virtual screening and biological evaluation of prenylated flavonoids derivatives as PKB/Akt1 inhibitors
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Multiple in vitro biological effects of phenolic compounds from Terminalia chebula var. tomentella
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The use of a pharmacophore model for identification of novel ligands for the benzodiazepine binding site of the GABAA receptor
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Selective pharmacophore design for α1-adrenoceptor subtypes
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Analyzing the performance of conformational search programs on compound databases
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Pharmacophore identification and virtual screening for methionyl-tRNA synthetase inhibitors
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Discovery of new potent human protein tyrosine phosphatase inhibitors via pharmacophore and QSAR analysis followed by in silico screening
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Pharmacophore design and database searching for selective monoamine neurotransmitter transporter ligands
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Binding mode analyses and pharmacophore model development for sulfonamide chalcone derivatives, a new class of α-glucosidase inhibitors
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Insilico studies on anthrax lethal factor inhibitors: Pharmacophore modeling and virtual screening approaches towards designing of novel inhibitors for a killer
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Pharmacophore identification, docking and “in silico” screening for novel CDK1 inhibitors
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Multi-conformation dynamic pharmacophore modeling of the peroxisome proliferator-activated receptor γ for the discovery of novel agonists
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Pharmacophore modeling of JAK1: A target infested with activity-cliffs
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Combined ligand based pharmacophore modeling, virtual screening methods to identify critical chemical features of novel potential inhibitors for phosphodiesterase-5
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Molecular rules for selectivity in lipase-catalysed acylation of lysine
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Methods for generating and applying pharmacophore models as virtual screening filters and for bioactivity profiling
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Synthesis and biological evaluation of pyridazino[4,3-b]indoles and indeno[1,2-c]pyridazines as new ligands of central and peripheral benzodiazepine receptors
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A feature based pharmacophore for Candida albicans MyristoylCoA: protein N-myristoyltransferase inhibitors
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Synthesis and pharmacological evaluation of new cysLT1 receptor antagonists
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Three-Dimensional common-Feature hypotheses for octopamine agonist 2-(arylimino)imidazolidines
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Synthesis and biological activity of new 1,4-benzodioxan-arylpiperazine derivatives. Further validation of a pharmacophore model for α1-adrenoceptor antagonists
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Analysis of stereoelectronic properties, mechanism of action and pharmacophore of synthetic indolo[2,1-b]quinazoline-6,12-dione derivatives in relation to antileishmanial activity using quantum chemical, cyclic voltammetry and 3-D-QSAR CATALYST procedures
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Three-dimensional pharmacophore hypotheses of octopamine/tyramine agonists which inhibit [1-14C]acetate incorporation in Plodia interpunctella
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Importance of the thiomorpholine introduction in new pyrrole derivatives as antimycobacterial agents analogues of BM 212
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Substituted hepta-1,6-dien-3-ones with green/fruity odours green/galbanum olfactophore model
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Three-dimensional pharmacophore hypotheses for the locust neuronal octopamine receptor (OAR3). Part 2: agonists
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Building a common feature hypothesis for thymidylate synthase inhibition
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Ligand design for α1 adrenoceptor subtype selective antagonists
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Three-dimensional common-feature hypotheses for octopamine agonist arylethanolamines
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Comparative pharmacophore development for inhibitors of human and rat 5-α-reductase
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Three-dimensional pharmacophore hypotheses of octopamine receptor responsible for the inhibition of sex-pheromone production in Helicoverpa armigera
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Virtual screening—an overview
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Molecular Gas-Phase Conformational Ensembles
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Discovery of Novel CXCR2 Inhibitors Using Ligand-Based Pharmacophore Models
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High-Quality Dataset of Protein-Bound Ligand Conformations and Its Application to Benchmarking Conformer Ensemble Generators
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Conformation Generation: The State of the Art
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Reliable and Performant Identification of Low-Energy Conformers in the Gas Phase and Water
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A Small Molecule Inhibitor of Bruton’s Tyrosine Kinase Involved in B-Cell Signaling
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3D QSAR Analyses of Novel Tyrosine Kinase Inhibitors Based on Pharmacophore Alignment
inferred← citeshttps://doi.org/10.1021/ci049753lopenalex-snapshot
Comparative Analysis of Protein-Bound Ligand Conformations with Respect to Catalyst's Conformational Space Subsampling Algorithms
inferred← citeshttps://doi.org/10.1021/ci100026xopenalex-snapshot
Drug-like Bioactive Structures and Conformational Coverage with the LigPrep/ConfGen Suite: Comparison to Programs MOE and Catalyst
inferred← citeshttps://doi.org/10.1021/ci100330yopenalex-snapshot
EMBM − A New Enzyme Mechanism-Based Method for Rational Design of Chemical Sites of Covalent Inhibitors
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Assessment of Conformational Ensemble Sizes Necessary for Specific Resolutions of Coverage of Conformational Space
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Fully Automated Molecular Mechanics Based Induced Fit Protein−Ligand Docking Method
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Conformational Sampling of Druglike Molecules with MOE and Catalyst: Implications for Pharmacophore Modeling and Virtual Screening
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Consensus Superiority of the Pharmacophore-Based Alignment, Over Maximum Common Substructure (MCS): 3D-QSAR Studies on Carbamates as Acetylcholinesterase Inhibitors
inferred← citeshttps://doi.org/10.1021/ci990303gopenalex-snapshot
Conformational Coverage by a Genetic Algorithm
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Identification of Novel Cyclooxygenase-2 Selective Inhibitors Using Pharmacophore Models
inferred← citeshttps://doi.org/10.1021/jm010821uopenalex-snapshot
Synthesis, Biological Evaluation, and Pharmacophore Generation of New Pyridazinone Derivatives with Affinity toward α1- and α2-Adrenoceptors
inferred← citeshttps://doi.org/10.1021/jm030841ropenalex-snapshot
Optimization of the Pharmacophore Model for 5-HT7R Antagonism. Design and Synthesis of New Naphtholactam and Naphthosultam Derivatives
inferred← citeshttps://doi.org/10.1021/jm0504454openalex-snapshot
Simple but Highly Effective Three-Dimensional Chemical-Feature-Based Pharmacophore Model for Diketo Acid Derivatives as Hepatitis C Virus RNA-Dependent RNA Polymerase Inhibitors
inferred← citeshttps://doi.org/10.1021/jm070609bopenalex-snapshot
Quinolone 3-Carboxylic Acid Pharmacophore: Design of Second Generation HIV-1 Integrase Inhibitors
inferred← citeshttps://doi.org/10.1021/jm300894hopenalex-snapshot
Pd-Catalyzed Direct C–H Bond Functionalization of Spirocyclic σ1 Ligands: Generation of a Pharmacophore Model and Analysis of the Reverse Binding Mode by Docking into a 3D Homology Model of the σ1 Receptor
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Structure-Based Virtual Screening for the Discovery of Natural Inhibitors for Human Rhinovirus Coat Protein
inferred← citeshttps://doi.org/10.1021/jm900366zopenalex-snapshot
Synthesis, Biological Evaluation, and Three-Dimensional in Silico Pharmacophore Model for σ1Receptor Ligands Based on a Series of Substituted Benzo[d]oxazol-2(3H)-one Derivatives
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Three-Dimensional Pharmacophore Methods in Drug Discovery
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A hybrid approach for addressing ring flexibility in 3D database searching
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Objective models for steroid binding sites of human globulins
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Structure of the essential peptidoglycan amidotransferase MurT/GatD complex from Streptococcus pneumoniae
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Pharmacophore modelling of stereoselective binding to the human organic cation transporter (hOCT1)
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Exploring protein–protein intermolecular recognition between meprin-α and endogenous protease regulator cystatinC coupled with pharmacophore elucidation
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Design potential selective inhibitors for human leukocyte common antigen-related (PTP-LAR) with fragment replace approach
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Molecular modelling study on human histamine H1 receptor and its applications in virtual lead identification for designing novel inverse agonists
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An integrated "4-phase" approach for setting endocrine disruption screening priorities--phase I and II predictions of estrogen receptor binding affinity
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QSAR and pharmacophore analysis on amides against drug-resistant S. aureus
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Pharmacophore generation of 2-substituted benzothiazoles as AdeABC efflux pump inhibitors inA. baumannii
inferred← citeshttps://doi.org/10.1093/jis/3.1.4openalex-snapshot
Inhibitors of calling behavior of Plodia interpunctella
inferred← citeshttps://doi.org/10.1109/nafips.2004.1336297openalex-snapshot
Fuzzy clustering in drug design: Application to cocaine abuse
inferred← citeshttps://doi.org/10.1109/robot.2004.1308057openalex-snapshot
Dynamics and kinematics of viral protein linear nano-actuators for bio-nano robotic systems
inferred← citeshttps://doi.org/10.1111/cbdd.12081openalex-snapshot
Pharmacophore‐Based Drug Design and Biological Evaluation of Novel ABCB1 Inhibitors
inferred← citeshttps://doi.org/10.1111/j.1747-0285.2006.00430.xopenalex-snapshot
Investigation of Potential Glycogen Synthase Kinase 3 Inhibitors Using Pharmacophore Mapping and Virtual Screening
inferred← citeshttps://doi.org/10.1111/j.1747-0285.2008.00667.xopenalex-snapshot
Virtual Screening of Cathepsin K Inhibitors Using Docking and Pharmacophore Models
inferred← citeshttps://doi.org/10.1111/j.1747-0285.2008.00714.xopenalex-snapshot
Quantitative Structure Activity Relationship and Pharmacophore Studies of Adenosine Receptor A2BInhibitors
inferred← citeshttps://doi.org/10.1111/j.1747-0285.2008.00751.xopenalex-snapshot
A Specific Pharmacophore Model of Aurora B Kinase Inhibitors and Virtual Screening Studies Based on it
inferred← citeshttps://doi.org/10.1111/j.1747-0285.2011.01160.xopenalex-snapshot
Discovery of New Antifungal Leads via Pharmacophore Modeling and QSAR Analysis of Fungal N‐Myristoyl Transferase Inhibitors Followed by In Silico Screening
inferred← citeshttps://doi.org/10.1115/1.1900751openalex-snapshot
Kinematics and Workspace Analysis of Protein Based Nano-Actuators
inferred← citeshttps://doi.org/10.1124/jpet.103.054999openalex-snapshot
Generation and Evaluation of a CYP2C9 Heteroactivation Pharmacophore
inferred← citeshttps://doi.org/10.1124/jpet.104.078519openalex-snapshot
Predictive Models of CYP3A4 Heteroactivation: In Vitro-in Vivo Scaling and Pharmacophore Modeling
inferred← citeshttps://doi.org/10.1142/9789812704436_0023openalex-snapshot
A MOLECULAR INVERSE KINEMATICS PROBLEM: AN APPROXIMATION APPROACH AND CHALLENGES
inferred← citeshttps://doi.org/10.1145/262839.262993openalex-snapshot
RAPID
inferred← citeshttps://doi.org/10.1186/1471-2105-10-101openalex-snapshot
Cyndi: a multi-objective evolution algorithm based method for bioactive molecular conformational generation
inferred← citeshttps://doi.org/10.1186/1471-2105-7-293openalex-snapshot
Representation of target-bound drugs by computed conformers: implications for conformational libraries
inferred← citeshttps://doi.org/10.1186/1758-2946-3-8openalex-snapshot
Confab - Systematic generation of diverse low-energy conformers
inferred← citeshttps://doi.org/10.1186/s13321-021-00524-0openalex-snapshot
Ensemble completeness in conformer sampling: the case of small macrocycles
inferred← citeshttps://doi.org/10.1201/9780203642627-26openalex-snapshot
Receptor-Mediated Toxicity: QSARs for Estrogen Receptor Binding and Priority Setting of Potential Estrogenic Endocrine Disruptors
inferred← citeshttps://doi.org/10.1201/9780203642627.ch13openalex-snapshot
Receptor-Mediated Toxicity
inferred← citeshttps://doi.org/10.1201/9780203913390-12openalex-snapshot
3D Structure Generation and Conformational Searching
inferred← citeshttps://doi.org/10.1201/9780203913390.ch7openalex-snapshot
3D Structure Generation and Conformational Searching
inferred← citeshttps://doi.org/10.1201/9781420006650.ch10openalex-snapshot
Discovery and Design of New Arthropod/Insect Repellents by Computer-Aided Molecular Modeling
inferred← citeshttps://doi.org/10.1517/17460441.2010.513711openalex-snapshot
Biasing conformational ensembles towards bioactive-like conformers for ligand-based drug design
inferred← citeshttps://doi.org/10.1673/031.003.0401openalex-snapshot
Inhibitors of calling behavior of Plodia interpunctella
inferred← citeshttps://doi.org/10.18632/oncotarget.16595openalex-snapshot
Synthesis, bioactivity, 3D-QSAR studies of novel dibenzofuran derivatives as PTP-MEG2 inhibitors
inferred← citeshttps://doi.org/10.2174/13862073113169990007openalex-snapshot
Pharmacophore Design, Virtual Screening, Molecular Docking and Optimization Approaches to Discover Potent Thrombin Inhibitors
inferred← citeshttps://doi.org/10.2174/1568026023392940openalex-snapshot
History and Evolution of the Pharmacophore Concept in Computer-Aided Drug Design
inferred← citeshttps://doi.org/10.2174/1573406418666220118153541openalex-snapshot
Ligand-based Modeling of CXC Chemokine Receptor 4 and Identification of Inhibitors of Novel Chemotypes as Potential Leads towards New Anti- COVID-19 Treatments
inferred← citeshttps://doi.org/10.2174/1573409914666180703120201openalex-snapshot
New Resensitizers for the Nicotinic Acetylcholine Receptor by Ligand-Based Pharmacophore Modeling
inferred← citeshttps://doi.org/10.2174/1874199101004010001openalex-snapshot
Addressing Two Issues on Conformational Differences and Utility of Random Number Generators in Conformational Sampling~!2009-06-01~!2009-09-14~!2010-04-01~!
inferred← citeshttps://doi.org/10.3390/i3020056openalex-snapshot
Three-Dimensional Common-Feature Hypotheses for Octopamine Agonist 1-Arylimidazolidine-2-Thiones
inferred← citeshttps://doi.org/10.3390/ijms251910600openalex-snapshot
Regulatory Role of IL6 in Immune-Related Adverse Events during Checkpoint Inhibitor Treatment in Melanoma
inferred← citeshttps://doi.org/10.3390/ph15060752openalex-snapshot
Application of In Silico Filtering and Isothermal Titration Calorimetry for the Discovery of Small Molecule Inhibitors of MDM2
inferred← citeshttps://doi.org/10.37285/ijddd.2.4.2openalex-snapshot
3D-QSAR studies on Pyrido[2,3-d]pyrimidine Derivatives as Fibroblast Growth Factor Receptor 1 Inhibitors: Application of Molecular Field Analysis (MFA)
inferred← citeshttps://doi.org/10.4155/fmc-2016-0056openalex-snapshot
Computer-Aided Discovery of New Fgfr-1 Inhibitors Followed by In Vitro Validation
inferred← citeshttps://doi.org/10.4155/fmc-2018-0400openalex-snapshot
Energy Windows for Computed Compound Conformers: Covering Artefacts Or Truly Large Reorganization Energies?
inferred← citeshttps://doi.org/10.4155/fmc.12.211openalex-snapshot
Discovery of Novel InhA Reductase Inhibitors: Application of Pharmacophore- and Shape-Based Screening Approach
inferred← citeshttps://doi.org/10.5012/bkcs.2012.33.9.2930openalex-snapshot
Pharmacophore Hypothesis for Atypical Antipsychotics
inferred← citeshttps://doi.org/10.5012/bkcs.2013.34.3.837openalex-snapshot
Molecular Modeling of Small Molecules as BVDV RNA-Dependent RNA Polymerase Allosteric Inhibitors
inferred← citeshttps://doi.org/10.5012/bkcs.2013.34.7.1972openalex-snapshot
Pharmacophore Models of Paclitaxel- and Epothilone-Based Microtubule Stabilizing Agents
inferred← citeshttps://doi.org/10.5012/bkcs.2014.35.7.2097openalex-snapshot
A Combined Pharmacophore-Based Virtual Screening, Docking Study and Molecular Dynamics (MD) Simulation Approach to Identify Inhibitors with Novel Scaffolds for Myeloid cell leukemia (Mcl-1)
inferred← citeshttps://doi.org/10.6084/m9.figshare.15080215openalex-snapshot
Additional file 1 of Ensemble completeness in conformer sampling: the case of small macrocycles
inferred← citeshttps://doi.org/10.70675/b4fda7f8z33f2z49cdzab44zb39365720137openalex-snapshot
Approche multi-échelle pour l’étude de la réaction de N-acylation enzymatique d’acides aminés
inferred← citeshttps://doi.org/10.7301/z0b856f4openalex-snapshot
Interpretation of Molecule Conformations from Drawn Diagrams
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