Evidence map›Paper›PMID 35807415›Full record

ReviewMolecules (Basel, Switzerland)2022

Application of Mathematical Modeling and Computational Tools in the Modern Drug Design and Development Process.

Md Rifat Hasan, Ahad Amer Alsaiari, Burhan Zain Fakhurji, Mohammad Habibur Rahman Molla, Amer H Asseri, Md Afsar Ahmed Sumon, Moon Nyeo Park, Foysal Ahammad, Bonglee Kim

Abstract readReview
In one paragraph

Review in Molecules (Basel, Switzerland), 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.

0numbers the graph read from it
0cells of the map it votes in
31citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

31 citing papers in PubMed.

  1. Virtual screening and experimental validation of a METTL3-targeting peptide withJournal of enzyme inhibition and medicinal chemistry · 2026
    Article
  2. Advances in the application of molecular docking in nanomedicine.Journal of computer-aided molecular design · 2026
    Article
  3. Article
  4. Article
  5. Article
  6. Molecular docking andJournal of Taibah University Medical Sciences · 2025
    Review
  7. Article
  8. Review
  9. Review
  10. Review
  11. Review
  12. In Silico Validation of AI-Assisted Drugs in Healthcare.Methods in molecular biology (Clifton, N.J.) · 2025
    Article
  13. Article
  14. Article
  15. Review
  16. Article
  17. Article
  18. Review
  19. Review
  20. Applications of Molecular Dynamics Simulations in Drug Discovery.Methods in molecular biology (Clifton, N.J.) · 2024
    Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

9 authors.

Md Rifat HasanDepartment of Mathematics, Faculty of Science, King Abdul-Aziz University, Jeddah 21589, Saudi Arabia.
Ahad Amer AlsaiariCollege of Applied Medical Science, Clinical Laboratories Science Department, Taif University, Taif 21944, Saudi Arabia.
Burhan Zain FakhurjiiGene Medical Training and Molecular Research Center, Jeddah 21589, Saudi Arabia.
Mohammad Habibur Rahman MollaDepartment of Biological Sciences, Faculty of Science, King Abdul-Aziz University, Jeddah 21589, Saudi Arabia.ORCID 0000-0003-1617-5342
Amer H AsseriBiochemistry Department, Faculty of Science, King Abdul-Aziz University, Jeddah 21589, Saudi Arabia.
Md Afsar Ahmed SumonDepartment of Marine Biology, Faculty of Marine Sciences, King Abdul-Aziz University, Jeddah 21589, Saudi Arabia.ORCID 0000-0002-6355-8314
Moon Nyeo ParkCollege of Korean Medicine, Kyung Hee University, Hoigidong, Dongdaemungu, Seoul 02453, Korea.ORCID 0000-0002-9276-3894
Foysal AhammadDepartment of Biological Sciences, Faculty of Science, King Abdul-Aziz University, Jeddah 21589, Saudi Arabia.ORCID 0000-0001-7313-4729
Bonglee KimCollege of Korean Medicine, Kyung Hee University, Hoigidong, Dongdaemungu, Seoul 02453, Korea.ORCID 0000-0002-8678-156X

Funding

NIEHS NIH HHS 27302C0038
6 · The paper itself

Abstract

The conventional drug discovery approach is an expensive and time-consuming process, but its limitations have been overcome with the help of mathematical modeling and computational drug design approaches. Previously, finding a small molecular candidate as a drug against a disease was very costly and required a long time to screen a compound against a specific target. The development of novel targets and small molecular candidates against different diseases including emerging and reemerging diseases remains a major concern and necessitates the development of novel therapeutic targets as well as drug candidates as early as possible. In this regard, computational and mathematical modeling approaches for drug development are advantageous due to their fastest predictive ability and cost-effectiveness features. Computer-aided drug design (CADD) techniques utilize different computer programs as well as mathematics formulas to comprehend the interaction of a target and drugs. Traditional methods to determine small-molecule candidates as a drug have several limitations, but CADD utilizes novel methods that require little time and accurately predict a compound against a specific disease with minimal cost. Therefore, this review aims to provide a brief insight into the mathematical modeling and computational approaches for identifying a novel target and small molecular candidates for curing a specific disease. The comprehensive review mainly focuses on biological target prediction, structure-based and ligand-based drug design methods, molecular docking, virtual screening, pharmacophore modeling, quantitative structure-activity relationship (QSAR) models, molecular dynamics simulation, and MM-GBSA/MM-PBSA approaches along with valuable database resources and tools for identifying novel targets and therapeutics against a disease. This review will help researchers in a way that may open the road for the development of effective drugs and preventative measures against a disease in the future as early as possible.

Indexed as

Drug DesignQuantitative Structure-Activity RelationshipComputer-Aided DesignDrug DiscoveryMolecular Docking SimulationMolecular Dynamics Simulationbiological activityCADDdrug designmathematical modelingMD simulationMM-GBSAMM-PBSApharmacophore modelingQSAR

Identifiers

PMID35807415
PMCPMC9268380

What Socratic holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.