Literature DB >> 26962875

A Perspective on Implementing a Quantitative Systems Pharmacology Platform for Drug Discovery and the Advancement of Personalized Medicine.

Andrew M Stern1, Mark E Schurdak2, Ivet Bahar2, Jeremy M Berg3, D Lansing Taylor4.   

Abstract

Drug candidates exhibiting well-defined pharmacokinetic and pharmacodynamic profiles that are otherwise safe often fail to demonstrate proof-of-concept in phase II and III trials. Innovation in drug discovery and development has been identified as a critical need for improving the efficiency of drug discovery, especially through collaborations between academia, government agencies, and industry. To address the innovation challenge, we describe a comprehensive, unbiased, integrated, and iterative quantitative systems pharmacology (QSP)-driven drug discovery and development strategy and platform that we have implemented at the University of Pittsburgh Drug Discovery Institute. Intrinsic to QSP is its integrated use of multiscale experimental and computational methods to identify mechanisms of disease progression and to test predicted therapeutic strategies likely to achieve clinical validation for appropriate subpopulations of patients. The QSP platform can address biological heterogeneity and anticipate the evolution of resistance mechanisms, which are major challenges for drug development. The implementation of this platform is dedicated to gaining an understanding of mechanism(s) of disease progression to enable the identification of novel therapeutic strategies as well as repurposing drugs. The QSP platform will help promote the paradigm shift from reactive population-based medicine to proactive personalized medicine by focusing on the patient as the starting and the end point.
© 2016 Society for Laboratory Automation and Screening.

Entities:  

Keywords:  drug discovery; novel therapeutic strategies; personalized medicine; quantitative systems pharmacology

Mesh:

Year:  2016        PMID: 26962875      PMCID: PMC4917453          DOI: 10.1177/1087057116635818

Source DB:  PubMed          Journal:  J Biomol Screen        ISSN: 1087-0571


  118 in total

1.  Identifying the proteins to which small-molecule probes and drugs bind in cells.

Authors:  Shao-En Ong; Monica Schenone; Adam A Margolin; Xiaoyu Li; Kathy Do; Mary K Doud; D R Mani; Letian Kuai; Xiang Wang; John L Wood; Nicola J Tolliday; Angela N Koehler; Lisa A Marcaurelle; Todd R Golub; Robert J Gould; Stuart L Schreiber; Steven A Carr
Journal:  Proc Natl Acad Sci U S A       Date:  2009-03-02       Impact factor: 11.205

2.  Quantitative analysis of pathways controlling extrinsic apoptosis in single cells.

Authors:  John G Albeck; John M Burke; Bree B Aldridge; Mingsheng Zhang; Douglas A Lauffenburger; Peter K Sorger
Journal:  Mol Cell       Date:  2008-04-11       Impact factor: 17.970

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.  High-throughput functional genomics using CRISPR-Cas9.

Authors:  Ophir Shalem; Neville E Sanjana; Feng Zhang
Journal:  Nat Rev Genet       Date:  2015-04-09       Impact factor: 53.242

Review 5.  Organs-on-chips at the frontiers of drug discovery.

Authors:  Eric W Esch; Anthony Bahinski; Dongeun Huh
Journal:  Nat Rev Drug Discov       Date:  2015-03-20       Impact factor: 84.694

Review 6.  Genotype to phenotype via network analysis.

Authors:  Hannah Carter; Matan Hofree; Trey Ideker
Journal:  Curr Opin Genet Dev       Date:  2013-11-14       Impact factor: 5.578

7.  Angiotensin II blockade and aortic-root dilation in Marfan's syndrome.

Authors:  Benjamin S Brooke; Jennifer P Habashi; Daniel P Judge; Nishant Patel; Bart Loeys; Harry C Dietz
Journal:  N Engl J Med       Date:  2008-06-26       Impact factor: 91.245

8.  Sensitive Detection of Mono- and Polyclonal ESR1 Mutations in Primary Tumors, Metastatic Lesions, and Cell-Free DNA of Breast Cancer Patients.

Authors:  Peilu Wang; Amir Bahreini; Rekha Gyanchandani; Peter C Lucas; Ryan J Hartmaier; Rebecca J Watters; Amruth R Jonnalagadda; Humberto E Trejo Bittar; Aaron Berg; Ronald L Hamilton; Brenda F Kurland; Kurt R Weiss; Aju Mathew; Jose Pablo Leone; Nancy E Davidson; Marina N Nikiforova; Adam M Brufsky; Tadeu F Ambros; Andrew M Stern; Shannon L Puhalla; Adrian V Lee; Steffi Oesterreich
Journal:  Clin Cancer Res       Date:  2015-10-23       Impact factor: 12.531

9.  LINCS Canvas Browser: interactive web app to query, browse and interrogate LINCS L1000 gene expression signatures.

Authors:  Qiaonan Duan; Corey Flynn; Mario Niepel; Marc Hafner; Jeremy L Muhlich; Nicolas F Fernandez; Andrew D Rouillard; Christopher M Tan; Edward Y Chen; Todd R Golub; Peter K Sorger; Aravind Subramanian; Avi Ma'ayan
Journal:  Nucleic Acids Res       Date:  2014-06-06       Impact factor: 16.971

10.  Targeting megakaryocytic-induced fibrosis in myeloproliferative neoplasms by AURKA inhibition.

Authors:  Qiang Jeremy Wen; Qiong Yang; Benjamin Goldenson; Sébastien Malinge; Terra Lasho; Rebekka K Schneider; Lawrence J Breyfogle; Rachael Schultz; Laure Gilles; Priya Koppikar; Omar Abdel-Wahab; Animesh Pardanani; Brady Stein; Sandeep Gurbuxani; Ann Mullally; Ross L Levine; Ayalew Tefferi; John D Crispino
Journal:  Nat Med       Date:  2015-11-16       Impact factor: 53.440

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  16 in total

1.  AMP Kinase Activation Attenuates Cardiac Remodeling in Pulmonary Hypertension due to Heart Failure with Preserved Ejection Fraction; Lung Epithelial Progenitor Cells in Alveolar Regeneration; and Drug Discovery and Novel Therapies for Lung Cancer.

Authors:  Andrea R Levine; William Bain; Joseph S Bednash; Mark T Gladwin; Bryan J McVerry
Journal:  Am J Respir Cell Mol Biol       Date:  2019-02       Impact factor: 6.914

2.  Harnessing Human Microphysiology Systems as Key Experimental Models for Quantitative Systems Pharmacology.

Authors:  D Lansing Taylor; Albert Gough; Mark E Schurdak; Lawrence Vernetti; Chakra S Chennubhotla; Daniel Lefever; Fen Pei; James R Faeder; Timothy R Lezon; Andrew M Stern; Ivet Bahar
Journal:  Handb Exp Pharmacol       Date:  2019

Review 3.  Liver 'organ on a chip'.

Authors:  Colin H Beckwitt; Amanda M Clark; Sarah Wheeler; D Lansing Taylor; Donna B Stolz; Linda Griffith; Alan Wells
Journal:  Exp Cell Res       Date:  2017-12-29       Impact factor: 3.905

4.  Paths to Successful Translation of New Therapies for Severe Traumatic Brain Injury in the Golden Age of Traumatic Brain Injury Research: A Pittsburgh Vision.

Authors:  Patrick M Kochanek; Travis C Jackson; Ruchira M Jha; Robert S B Clark; David O Okonkwo; Hülya Bayır; Samuel M Poloyac; Amy K Wagner; Philip E Empey; Yvette P Conley; Michael J Bell; Anthony E Kline; Corina O Bondi; Dennis W Simon; Shaun W Carlson; Ava M Puccio; Christopher M Horvat; Alicia K Au; Jonathan Elmer; Amery Treble-Barna; Milos D Ikonomovic; Lori A Shutter; D Lansing Taylor; Andrew M Stern; Steven H Graham; Valerian E Kagan; Edwin K Jackson; Stephen R Wisniewski; C Edward Dixon
Journal:  J Neurotrauma       Date:  2019-02-01       Impact factor: 5.269

5.  The Microphysiology Systems Database for Analyzing and Modeling Compound Interactions with Human and Animal Organ Models.

Authors:  Albert Gough; Lawrence Vernetti; Luke Bergenthal; Tong Ying Shun; D Lansing Taylor
Journal:  Appl In Vitro Toxicol       Date:  2016-06-01

Review 6.  Biologically Relevant Heterogeneity: Metrics and Practical Insights.

Authors:  Albert Gough; Andrew M Stern; John Maier; Timothy Lezon; Tong-Ying Shun; Chakra Chennubhotla; Mark E Schurdak; Steven A Haney; D Lansing Taylor
Journal:  SLAS Discov       Date:  2017-01-06       Impact factor: 3.341

Review 7.  Quantifying the progression of non-alcoholic fatty liver disease in human biomimetic liver microphysiology systems with fluorescent protein biosensors.

Authors:  Manush Saydmohammed; Anupma Jha; Vineet Mahajan; Dillon Gavlock; Tong Ying Shun; Richard DeBiasio; Daniel Lefever; Xiang Li; Celeste Reese; Erin E Kershaw; Vijay Yechoor; Jaideep Behari; Alejandro Soto-Gutierrez; Larry Vernetti; Andrew Stern; Albert Gough; Mark T Miedel; D Lansing Taylor
Journal:  Exp Biol Med (Maywood)       Date:  2021-05-06

Review 8.  Human biomimetic liver microphysiology systems in drug development and precision medicine.

Authors:  Albert Gough; Alejandro Soto-Gutierrez; Lawrence Vernetti; Mo R Ebrahimkhani; Andrew M Stern; D Lansing Taylor
Journal:  Nat Rev Gastroenterol Hepatol       Date:  2020-12-17       Impact factor: 73.082

9.  Improving natural product research translation: From source to clinical trial.

Authors:  Barbara C Sorkin; Adam J Kuszak; Gregory Bloss; Naomi K Fukagawa; Freddie Ann Hoffman; Mahtab Jafari; Bruce Barrett; Paula N Brown; Frederic D Bushman; Steven J Casper; Floyd H Chilton; Christopher S Coffey; Mario G Ferruzzi; D Craig Hopp; Mairead Kiely; Daniel Lakens; John B MacMillan; David O Meltzer; Marco Pahor; Jeffrey Paul; Kathleen Pritchett-Corning; Sara K Quinney; Barbara Rehermann; Kenneth D R Setchell; Nisha S Sipes; Jacqueline M Stephens; D Lansing Taylor; Hervé Tiriac; Michael A Walters; Dan Xi; Giovanna Zappalá; Guido F Pauli
Journal:  FASEB J       Date:  2019-12-10       Impact factor: 5.834

10.  Connecting Neuronal Cell Protective Pathways and Drug Combinations in a Huntington's Disease Model through the Application of Quantitative Systems Pharmacology.

Authors:  Fen Pei; Hongchun Li; Mark J Henderson; Steven A Titus; Ajit Jadhav; Anton Simeonov; Murat Can Cobanoglu; Seyed H Mousavi; Tongying Shun; Lee McDermott; Prema Iyer; Michael Fioravanti; Diane Carlisle; Robert M Friedlander; Ivet Bahar; D Lansing Taylor; Timothy R Lezon; Andrew M Stern; Mark E Schurdak
Journal:  Sci Rep       Date:  2017-12-19       Impact factor: 4.379

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