Literature DB >> 26093283

Molecular mechanism matters: Benefits of mechanistic computational models for drug development.

Lindsay E Clegg1, Feilim Mac Gabhann2.   

Abstract

Making drug development a more efficient and cost-effective process will have a transformative effect on human health. A key, yet underutilized, tool to aid in this transformation is mechanistic computational modeling. By incorporating decades of hard-won prior knowledge of molecular interactions, cellular signaling, and cellular behavior, mechanistic models can achieve a level of predictiveness that is not feasible using solely empirical characterization of drug pharmacodynamics. These models can integrate diverse types of data from cell culture and animal experiments, including high-throughput systems biology experiments, and translate the results into the context of human disease. This provides a framework for identification of new drug targets, measurable biomarkers for drug action in target tissues, and patient populations for which a drug is likely to be effective or ineffective. Additionally, mechanistic models are valuable in virtual screening of new therapeutic strategies, such as gene or cell therapy and tissue regeneration, identifying the key requirements for these approaches to succeed in a heterogeneous patient population. These capabilities, which are distinct from and complementary to those of existing drug development strategies, demonstrate the opportunity to improve success rates in the drug development pipeline through the use of mechanistic computational models.
Copyright © 2015 Elsevier Ltd. All rights reserved.

Entities:  

Keywords:  Drug development; Mechanistic computational model; Pharmacodynamics; Pharmacokinetics; Systems pharmacology

Mesh:

Year:  2015        PMID: 26093283      PMCID: PMC4567444          DOI: 10.1016/j.phrs.2015.06.002

Source DB:  PubMed          Journal:  Pharmacol Res        ISSN: 1043-6618            Impact factor:   7.658


  45 in total

1.  Linking a genetic defect to its cellular phenotype in a cardiac arrhythmia.

Authors:  C E Clancy; Y Rudy
Journal:  Nature       Date:  1999-08-05       Impact factor: 49.962

2.  Multi-scale computational models of pro-angiogenic treatments in peripheral arterial disease.

Authors:  Feilim Mac Gabhann; James W Ji; Aleksander S Popel
Journal:  Ann Biomed Eng       Date:  2007-04-10       Impact factor: 3.934

Review 3.  The productivity crisis in pharmaceutical R&D.

Authors:  Fabio Pammolli; Laura Magazzini; Massimo Riccaboni
Journal:  Nat Rev Drug Discov       Date:  2011-06       Impact factor: 84.694

Review 4.  Extracellular regulation of VEGF: isoforms, proteolysis, and vascular patterning.

Authors:  Prakash Vempati; Aleksander S Popel; Feilim Mac Gabhann
Journal:  Cytokine Growth Factor Rev       Date:  2013-11-27       Impact factor: 7.638

Review 5.  Understanding the dose-effect relationship: clinical application of pharmacokinetic-pharmacodynamic models.

Authors:  N H Holford; L B Sheiner
Journal:  Clin Pharmacokinet       Date:  1981 Nov-Dec       Impact factor: 6.447

6.  Preliminary report: effect of encainide and flecainide on mortality in a randomized trial of arrhythmia suppression after myocardial infarction.

Authors: 
Journal:  N Engl J Med       Date:  1989-08-10       Impact factor: 91.245

7.  Compartment model predicts VEGF secretion and investigates the effects of VEGF trap in tumor-bearing mice.

Authors:  Stacey D Finley; Manjima Dhar; Aleksander S Popel
Journal:  Front Oncol       Date:  2013-07-30       Impact factor: 6.244

8.  In silico Prediction of Sex-Based Differences in Human Susceptibility to Cardiac Ventricular Tachyarrhythmias.

Authors:  Pei-Chi Yang; Colleen E Clancy
Journal:  Front Physiol       Date:  2012-09-14       Impact factor: 4.566

9.  APOBEC3G-Augmented Stem Cell Therapy to Modulate HIV Replication: A Computational Study.

Authors:  Iraj Hosseini; Feilim Mac Gabhann
Journal:  PLoS One       Date:  2013-05-22       Impact factor: 3.240

10.  A General Network Pharmacodynamic Model-Based Design Pipeline for Customized Cancer Therapy Applied to the VEGFR Pathway.

Authors:  X-Y Zhang; M R Birtwistle; J M Gallo
Journal:  CPT Pharmacometrics Syst Pharmacol       Date:  2014-01-15
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  14 in total

1.  A computational analysis of pro-angiogenic therapies for peripheral artery disease.

Authors:  Lindsay E Clegg; Feilim Mac Gabhann
Journal:  Integr Biol (Camb)       Date:  2018-01-22       Impact factor: 2.192

Review 2.  Recent Advances Regarding the Molecular Mechanisms of Triterpenic Acids: A Review (Part I).

Authors:  Marius Mioc; Andreea Milan; Daniel Malița; Alexandra Mioc; Alexandra Prodea; Roxana Racoviceanu; Roxana Ghiulai; Andreea Cristea; Florina Căruntu; Codruța Șoica
Journal:  Int J Mol Sci       Date:  2022-07-13       Impact factor: 6.208

3.  Tumor and endothelial cells collaborate via transcellular receptor complexes.

Authors:  Sarvenaz Sarabipour; Feilim Mac Gabhann
Journal:  J Pathol       Date:  2018-11-29       Impact factor: 7.996

Review 4.  Multiscale Modeling in the Clinic: Drug Design and Development.

Authors:  Colleen E Clancy; Gary An; William R Cannon; Yaling Liu; Elebeoba E May; Peter Ortoleva; Aleksander S Popel; James P Sluka; Jing Su; Paolo Vicini; Xiaobo Zhou; David M Eckmann
Journal:  Ann Biomed Eng       Date:  2016-02-17       Impact factor: 3.934

5.  Inhibition of VEGFR2 Activation and Its Downstream Signaling to ERK1/2 and Calcium by Thrombospondin-1 (TSP1): In silico Investigation.

Authors:  Hojjat Bazzazi; Jeffery S Isenberg; Aleksander S Popel
Journal:  Front Physiol       Date:  2017-02-06       Impact factor: 4.566

6.  A computational analysis of in vivo VEGFR activation by multiple co-expressed ligands.

Authors:  Lindsay E Clegg; Feilim Mac Gabhann
Journal:  PLoS Comput Biol       Date:  2017-03-20       Impact factor: 4.475

7.  Development of a Novel 3D Tumor-tissue Invasion Model for High-throughput, High-content Phenotypic Drug Screening.

Authors:  T J Puls; Xiaohong Tan; Mahera Husain; Catherine F Whittington; Melissa L Fishel; Sherry L Voytik-Harbin
Journal:  Sci Rep       Date:  2018-08-29       Impact factor: 4.379

8.  Mechanistic Models of Cellular Signaling, Cytokine Crosstalk, and Cell-Cell Communication in Immunology.

Authors:  Martin Meier-Schellersheim; Rajat Varma; Bastian R Angermann
Journal:  Front Immunol       Date:  2019-09-25       Impact factor: 7.561

9.  Systems Pharmacology of VEGF165b in Peripheral Artery Disease.

Authors:  Lindsay E Clegg; Vijay C Ganta; Brian H Annex; Feilim Mac Gabhann
Journal:  CPT Pharmacometrics Syst Pharmacol       Date:  2017-11-28

Review 10.  A Review on Applications of Computational Methods in Drug Screening and Design.

Authors:  Xiaoqian Lin; Xiu Li; Xubo Lin
Journal:  Molecules       Date:  2020-03-18       Impact factor: 4.411

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