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Pharmer: Efficient and Exact Pharmacophore Search

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

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Efficient overlay of small organic molecules using 3D pharmacophores
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Generalizing the Hough transform to detect arbitrary shapes
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Estimating 3-D location parameters using dual number quaternions
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Critical review of the role of HTS in drug discovery
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Molecule-pharmacophore superpositioning and pattern matching in computational drug design
inferredcites →https://doi.org/10.1016/s1359-6446(00)01665-2openalex-snapshot
The design of combinatorial libraries using properties and 3D pharmacophore fingerprints
inferredcites →https://doi.org/10.1016/s1359-6446(02)02411-xopenalex-snapshot
Why do we need so many chemical similarity search methods?
inferredcites →https://doi.org/10.1021/cc050142vopenalex-snapshot
Proteomimetic Libraries: Design, Synthesis, and Evaluation of p53−MDM2 Interaction Inhibitors
inferredcites →https://doi.org/10.1021/ci00017a025openalex-snapshot
Flexible 3D searching: The directed tweak technique
inferredcites →https://doi.org/10.1021/ci00064a005openalex-snapshot
3DSEARCH: a system for three-dimensional substructure searching
inferredcites →https://doi.org/10.1021/ci060094hopenalex-snapshot
Recore: A Fast and Versatile Method for Scaffold Hopping Based on Small Molecule Crystal Structure Conformations
inferredcites →https://doi.org/10.1021/ci100136bopenalex-snapshot
One Concept, Three Implementations of 3D Pharmacophore-Based Virtual Screening: Distinct Coverage of Chemical Search Space
inferredcites →https://doi.org/10.1021/ci600253eopenalex-snapshot
A Common Reference Framework for Analyzing/Comparing Proteins and Ligands. Fingerprints for Ligands And Proteins (FLAP): Theory and Application
inferredcites →https://doi.org/10.1021/ci8002649openalex-snapshot
Maximum Unbiased Validation (MUV) Data Sets for Virtual Screening Based on PubChem Bioactivity Data
inferredcites →https://doi.org/10.1021/jm900817uopenalex-snapshot
Three-Dimensional Pharmacophore Methods in Drug Discovery
inferredcites →https://doi.org/10.1021/jm9806998openalex-snapshot
New 4-Point Pharmacophore Method for Molecular Similarity and Diversity Applications: Overview of the Method and Applications, Including a Novel Approach to the Design of Combinatorial Libraries Containing Privileged Substructures
inferredcites →https://doi.org/10.1023/a:1021271615909openalex-snapshot
Maximum common subgraph isomorphism algorithms for the matching of chemical structures
inferredcites →https://doi.org/10.1038/nature03197openalex-snapshot
Virtual screening of chemical libraries
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Integration of virtual and high-throughput screening
inferredcites →https://doi.org/10.1109/99.641604openalex-snapshot
Geometric hashing: an overview
inferredcites →https://doi.org/10.1142/9789814447331_0055openalex-snapshot
LIBRARY DESIGN AND VIRTUAL SCREENING USING MULTIPLE 4-POINT PHARMACOPHORE FINGERPRINTS
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Space/time trade-offs in hash coding with allowable errors
inferredcites →https://doi.org/10.2174/1381612013397843openalex-snapshot
3-D Pharmacophores in Drug Discovery

What points at this work

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

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Structural characterization and selective drug targeting of higher-order DNA G-quadruplex systems.
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Computational evaluation of natural compounds as potential inhibitors of human PEPCK-M: an alternative for lung cancer therapy
inferred← citeshttps://doi.org/10.2147/rrmc.s91485openalex-snapshot
QSAR and pharmacophore modeling of aminopyridazine derivatives of γ-aminobutyric acid as selective GABA-A receptor antagonists against induced coma
inferred← citeshttps://doi.org/10.2174/0113816128259795231023193419openalex-snapshot
Computational Approaches to Designing Antiviral Drugs against COVID-19: A Comprehensive Review
inferred← citeshttps://doi.org/10.2174/1386207323666200901104222openalex-snapshot
Antidepressant Drug Design on TCAs and Phenoxyphenylpropylamines Utilizing QSAR and Pharmacophore Modeling
inferred← citeshttps://doi.org/10.2174/1568026611313100005openalex-snapshot
Open Source Software and Web Services for Designing Therapeutic Molecules
inferred← citeshttps://doi.org/10.2174/1570180820666230816141241openalex-snapshot
Exploring Brazilian Natural Products as Potential Bioactive Compounds against Trypanosoma cruzi by Targeting Squalene Synthase
inferred← citeshttps://doi.org/10.2174/9789815179934123010005openalex-snapshot
Pharmacophore Mapping: An Important Tool in Modern Drug Design and Discovery
inferred← citeshttps://doi.org/10.2174/9789815223163124090004openalex-snapshot
Utilizing in silico Methods in New Drug Design
inferred← citeshttps://doi.org/10.2174/9798898812164125080005openalex-snapshot
Computational Design of Therapeutic Peptides
inferred← citeshttps://doi.org/10.26481/dis.20141008jdopenalex-snapshot
Application of in-silico approaches to cardiovascular disease
inferred← citeshttps://doi.org/10.29013/ejbls-23-3openalex-snapshot
inferred← citeshttps://doi.org/10.29013/ejbls-23-3-8-15openalex-snapshot
Design of Acetylcholinesterase Inhibitors for Alzheimer's Disease
inferred← citeshttps://doi.org/10.29013/elbls-23-3openalex-snapshot
inferred← citeshttps://doi.org/10.3389/fbinf.2025.1628800openalex-snapshot
PharmacoForge: pharmacophore generation with diffusion models
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/fchem.2021.719949openalex-snapshot
Potential Inhibitors of Fascin From A Database of Marine Natural Products: A Virtual Screening and Molecular Dynamics Study
inferred← citeshttps://doi.org/10.3390/cimb45120638openalex-snapshot
In Silico Analysis of SARS-CoV-2 Non-Structural Proteins Reveals an Interaction with the Host’s Heat Shock Proteins That May Contribute to Viral Replications and Development
inferred← citeshttps://doi.org/10.3390/cimb48010080openalex-snapshot
SARS-CoV-2 Helicase (NSP13) Interacts with Mammalian Polyamine and HSP Partners in Promoting Viral Replication
inferred← citeshttps://doi.org/10.3390/ijms20164014openalex-snapshot
Discovery of Novel TASK-3 Channel Blockers Using a Pharmacophore-Based Virtual Screening
inferred← citeshttps://doi.org/10.3390/ijms21041523openalex-snapshot
Discovery of Small-Molecule Activators for Glucose-6-Phosphate Dehydrogenase (G6PD) Using Machine Learning Approaches
inferred← citeshttps://doi.org/10.3390/ijms222413259openalex-snapshot
Drug Discovery for Mycobacterium tuberculosis Using Structure-Based Computer-Aided Drug Design Approach
inferred← citeshttps://doi.org/10.3390/life11040346openalex-snapshot
Behavior of Chemokine Receptor 6 (CXCR6) in Complex with CXCL16 Soluble form Chemokine by Molecular Dynamic Simulations: General Protein‒Ligand Interaction Model and 3D-QSAR Studies of Synthetic Antagonists
inferred← citeshttps://doi.org/10.3390/molecules23123094openalex-snapshot
Ligand-Based Pharmacophore Modeling Using Novel 3D Pharmacophore Signatures
inferred← citeshttps://doi.org/10.3390/molecules24050987openalex-snapshot
Vasodilation Elicited by Isoxsuprine, Identified by High-Throughput Virtual Screening of Compound Libraries, Involves Activation of the NO/cGMP and H2S/KATP Pathways and Blockade of α1-Adrenoceptors and Calcium Channels
inferred← citeshttps://doi.org/10.3390/molecules25030665openalex-snapshot
In Silico Strategies in Tuberculosis Drug Discovery
inferred← citeshttps://doi.org/10.3390/molecules25194413openalex-snapshot
Computational Study of C-X-C Chemokine Receptor (CXCR)3 Binding with Its Natural Agonists Chemokine (C-X-C Motif) Ligand (CXCL)9, 10 and 11 and with Synthetic Antagonists: Insights of Receptor Activation towards Drug Design for Vitiligo
inferred← citeshttps://doi.org/10.3390/molecules26020492openalex-snapshot
Virtual Screening of Natural Compounds as Potential PI3K-AKT1 Signaling Pathway Inhibitors and Experimental Validation
inferred← citeshttps://doi.org/10.3390/molecules27134169openalex-snapshot
Application of Mathematical Modeling and Computational Tools in the Modern Drug Design and Development Process
inferred← citeshttps://doi.org/10.3390/nutraceuticals2020006openalex-snapshot
Design and Development of Novel Nutraceuticals: Current Trends and Methodologies
inferred← citeshttps://doi.org/10.35652/igjps.2022.12006openalex-snapshot
A Review on Computational Software Tools for Drug Design and Discovery
inferred← citeshttps://doi.org/10.4018/978-1-6684-7337-5.ch013openalex-snapshot
Computer-Aided Drug Design of Plant-Based Compounds
inferred← citeshttps://doi.org/10.4018/979-8-3693-5598-5.ch017openalex-snapshot
Trends of Pharmacophore Modelling in Drug Discovery
inferred← citeshttps://doi.org/10.4155/fmc-2018-0076openalex-snapshot
A Review of Ligand-Based Virtual Screening Web Tools and Screening Algorithms in Large Molecular Databases in the Age of Big Data
inferred← citeshttps://doi.org/10.52586/s551openalex-snapshot
Approaches for network based drug discovery
inferred← citeshttps://doi.org/10.61751/bmbr/4.2023openalex-snapshot
inferred← citeshttps://doi.org/10.64898/2026.09.10.750648openalex-snapshot
Interaction Profiles as a Universal Language for Generative Molecular Design with ShEPhERD–2
inferred← citeshttps://doi.org/10.70675/519db432z7badz43d9z954dz018a02ab52a8openalex-snapshot
Computational exploration of host-guest complexes
inferred← citeshttps://doi.org/10.7287/peerj.725v0.1/reviews/1openalex-snapshot
Peer Review #1 of "DrugOn: a fully integrated pharmacophore modeling and structure optimization toolkit (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.725v0.2/reviews/1openalex-snapshot
Peer Review #1 of "DrugOn: a fully integrated pharmacophore modeling and structure optimization toolkit (v0.2)"
inferred← citeshttps://doi.org/10.7717/peerj.725openalex-snapshot
DrugOn: a fully integrated pharmacophore modeling and structure optimization toolkit
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.