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Innovative Strategies and Applications for Drug Discovery

A special issue of Current Issues in Molecular Biology (ISSN 1467-3045). This special issue belongs to the section "Molecular Medicine".

Deadline for manuscript submissions: 31 August 2025 | Viewed by 2493

Special Issue Editor


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Guest Editor
Department of Pharmacology, Kangwon National University School of Medicine, Chuncheon 24341, Republic of Korea
Interests: drug discovery; molecular dynamics simulation; molecular docking

Special Issue Information

Dear Colleagues,

The rapid advancement of computational methods has significantly transformed the landscape of drug discovery and development. Traditional processes, often time-consuming and resource-intensive, are now being complemented and, in some cases, replaced by innovative computational strategies. Techniques such as molecular docking, pharmacophore modeling, and molecular dynamics simulations are increasingly integrated with machine learning algorithms to enhance prediction accuracy and expedite the discovery of novel therapeutic agents. This Special Issue is dedicated to exploring the intersection of computational methodologies and molecular research, emphasizing how these advancements are applied to molecular modeling, prediction, and design.

We invite researchers to contribute their original research articles, reviews, and case studies that showcase the integration of computational techniques with molecular research. Contributions should focus on how these methodologies enhance our understanding of molecular interactions and accelerate the discovery of new therapeutic agents. Specific areas of interest include the following topics:

  1. Advanced Computational Techniques in Molecular Research:
  • Development and application of novel algorithms for molecular modeling and virtual screening;
  • Machine learning approaches for predicting molecular properties, protein–ligand interactions, and drug design;
  • Generative models for optimizing and designing drug-like molecules.
  1. Integrated Computational Platforms:
  • Platforms that integrate computational methods with molecular research to streamline discovery workflows;
  • Tools that combine molecular data with machine learning for target identification and validation.
  1. Case Studies in Molecular Drug Discovery:
  • Case studies demonstrating the application of computational and machine learning methods in real-world drug discovery projects;
  • Examples where these methods have led to the identification of promising drug candidates or provided insights into drug resistance mechanisms.
  1. Benchmarking Datasets and Validation:
  • Creation and utilization of datasets for training and validating computational models in molecular research;
  • Comparative studies evaluating different computational and machine learning approaches in molecular contexts.
  1. Predictive Modeling for Molecular Properties:
  • Computational methods for predicting key molecular properties, including absorption, distribution, metabolism, excretion, and toxicity (ADMET);
  • Machine learning models that improve the safety profile of drug candidates.

We hope that this Special Issue will serve as a valuable platform for researchers to share their cutting-edge work and foster collaborations that push the boundaries of what is possible in drug discovery. We look forward to receiving your valuable contributions to this Special Issue.

Dr. Wanjoo Chun
Guest Editor

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Current Issues in Molecular Biology is an international peer-reviewed open access monthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2200 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • drug discovery
  • computational strategies
  • molecular docking
  • pharmacophore modeling
  • molecular dynamics simulations

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Published Papers (2 papers)

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Research

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16 pages, 2065 KiB  
Article
Investigating the Inhibitory Potential of Flavonoids against Aldose Reductase: Insights from Molecular Docking, Dynamics Simulations, and gmx_MMPBSA Analysis
by Muhammad Yasir, Jinyoung Park, Eun-Taek Han, Jin-Hee Han, Won Sun Park and Wanjoo Chun
Curr. Issues Mol. Biol. 2024, 46(10), 11503-11518; https://doi.org/10.3390/cimb46100683 - 16 Oct 2024
Cited by 3 | Viewed by 1405
Abstract
Diabetes mellitus (DM) is a complex metabolic disorder characterized by chronic hyperglycemia, with aldose reductase playing a critical role in the pathophysiology of diabetic complications. This study aimed to investigate the efficacy of flavonoid compounds as potential aldose reductase inhibitors using a combination [...] Read more.
Diabetes mellitus (DM) is a complex metabolic disorder characterized by chronic hyperglycemia, with aldose reductase playing a critical role in the pathophysiology of diabetic complications. This study aimed to investigate the efficacy of flavonoid compounds as potential aldose reductase inhibitors using a combination of molecular docking and molecular dynamics (MD) simulations. The three-dimensional structures of representative flavonoid compounds were obtained from PubChem, minimized, and docked against aldose reductase using Discovery Studio’s CDocker module. The top 10 compounds Daidzein, Quercetin, Kaempferol, Butin, Genistein, Sterubin, Baicalein, Pulchellidin, Wogonin, and Biochanin_A were selected based on their lowest docking energy values for further analysis. Subsequent MD simulations over 100 ns revealed that Daidzein and Quercetin maintained the highest stability, forming multiple conventional hydrogen bonds and strong hydrophobic interactions, consistent with their favorable interaction energies and stable RMSD values. Comparative analysis of hydrogen bond interactions and RMSD profiles underscored the ligand stability. MMPBSA analysis further confirmed the significant binding affinities of Daidzein and Quercetin, highlighting their potential as aldose reductase inhibitors. This study highlights the potential of flavonoids as aldose reductase inhibitors, offering insights into their binding interactions and stability, which could contribute to developing novel therapeutics for DM complications. Full article
(This article belongs to the Special Issue Innovative Strategies and Applications for Drug Discovery)
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Review

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34 pages, 1189 KiB  
Review
Genetic Variation and Sex-Based Differences: Current Considerations for Anesthetic Management
by Stephen DiMaria, Nicholas Mangano, Adam Bruzzese, Benjamin Bartula, Shruti Parikh and Ana Costa
Curr. Issues Mol. Biol. 2025, 47(3), 202; https://doi.org/10.3390/cimb47030202 - 18 Mar 2025
Viewed by 767
Abstract
Biomedical sciences have made immense progress and numerous discoveries aimed at improving the quality of life and life expectancy in modern times. Anesthesiology is typically tailored to individual patients as its clinical effects depend on multiple factors, including a patient’s physiological and pathological [...] Read more.
Biomedical sciences have made immense progress and numerous discoveries aimed at improving the quality of life and life expectancy in modern times. Anesthesiology is typically tailored to individual patients as its clinical effects depend on multiple factors, including a patient’s physiological and pathological states, age, environmental exposures, and genetic variations. Sex differences are also paramount for a complete understanding of the effects of specific anesthetic medications on men and women. However, women-specific research and the inclusion of women in clinical trials, specifically during child-bearing years, remain disproportionately low compared to the general population at large. This review describes and summarizes genetic variations, including sex differences, that affect responses to common anesthetic medications such as volatile anesthetics, induction agents, neuromuscular blocking drugs, opioids, and local anesthetics. It also discusses the influence of genetic variations on anesthesia outcomes, such as postoperative nausea and vomiting, allergic reactions, pain, depth of anesthesia, awareness under anesthesia and recall, and postoperative delirium. Full article
(This article belongs to the Special Issue Innovative Strategies and Applications for Drug Discovery)
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