gQSPSim: A SimBiology‐Based GUI for Standardized QSP Model Development and Application
Quantitative systems pharmacology (QSP) models are often implemented using a wide variety of technical workflows and methodologies. To facilitate reproducibility, transparency, portability, and reuse for QSP models, we have developed gQSPSim, a graphical user interface–based MATLAB application that...
Main Authors: | , , , , , , |
---|---|
Format: | Article |
Language: | English |
Published: |
Wiley
2020-03-01
|
Series: | CPT: Pharmacometrics & Systems Pharmacology |
Online Access: | https://doi.org/10.1002/psp4.12494 |
id |
doaj-add1386aea8a43a7a880d7a7032a4a8d |
---|---|
record_format |
Article |
spelling |
doaj-add1386aea8a43a7a880d7a7032a4a8d2020-11-25T03:35:35ZengWileyCPT: Pharmacometrics & Systems Pharmacology2163-83062020-03-019316517610.1002/psp4.12494gQSPSim: A SimBiology‐Based GUI for Standardized QSP Model Development and ApplicationIraj Hosseini0Justin Feigelman1Anita Gajjala2Monica Susilo3Vidya Ramakrishnan4Saroja Ramanujan5Kapil Gadkar6Genentech Inc. South San Francisco California USAGenentech Inc. South San Francisco California USAConsulting Services MathWorks Natick Massachusetts USAGenentech Inc. South San Francisco California USAGenentech Inc. South San Francisco California USAGenentech Inc. South San Francisco California USAGenentech Inc. South San Francisco California USAQuantitative systems pharmacology (QSP) models are often implemented using a wide variety of technical workflows and methodologies. To facilitate reproducibility, transparency, portability, and reuse for QSP models, we have developed gQSPSim, a graphical user interface–based MATLAB application that performs key steps in QSP model development and analyses. The capabilities of gQSPSim include (i) model calibration using global and local optimization methods, (ii) development of virtual subjects to explore variability and uncertainty in the represented biology, and (iii) simulations of virtual populations for different interventions. gQSPSim works with SimBiology‐built models using components such as species, doses, variants, and rules. All functionalities are equipped with an interactive visualization interface and the ability to generate presentation‐ready figures. In addition, standardized gQSPSim sessions can be shared and saved for future extension and reuse. In this work, we demonstrate gQSPSim’s capabilities with a standard target‐mediated drug disposition model and a published model of anti‐proprotein convertase subtilisin/kexin type 9 (PCSK9) treatment of hypercholesterolemia.https://doi.org/10.1002/psp4.12494 |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Iraj Hosseini Justin Feigelman Anita Gajjala Monica Susilo Vidya Ramakrishnan Saroja Ramanujan Kapil Gadkar |
spellingShingle |
Iraj Hosseini Justin Feigelman Anita Gajjala Monica Susilo Vidya Ramakrishnan Saroja Ramanujan Kapil Gadkar gQSPSim: A SimBiology‐Based GUI for Standardized QSP Model Development and Application CPT: Pharmacometrics & Systems Pharmacology |
author_facet |
Iraj Hosseini Justin Feigelman Anita Gajjala Monica Susilo Vidya Ramakrishnan Saroja Ramanujan Kapil Gadkar |
author_sort |
Iraj Hosseini |
title |
gQSPSim: A SimBiology‐Based GUI for Standardized QSP Model Development and Application |
title_short |
gQSPSim: A SimBiology‐Based GUI for Standardized QSP Model Development and Application |
title_full |
gQSPSim: A SimBiology‐Based GUI for Standardized QSP Model Development and Application |
title_fullStr |
gQSPSim: A SimBiology‐Based GUI for Standardized QSP Model Development and Application |
title_full_unstemmed |
gQSPSim: A SimBiology‐Based GUI for Standardized QSP Model Development and Application |
title_sort |
gqspsim: a simbiology‐based gui for standardized qsp model development and application |
publisher |
Wiley |
series |
CPT: Pharmacometrics & Systems Pharmacology |
issn |
2163-8306 |
publishDate |
2020-03-01 |
description |
Quantitative systems pharmacology (QSP) models are often implemented using a wide variety of technical workflows and methodologies. To facilitate reproducibility, transparency, portability, and reuse for QSP models, we have developed gQSPSim, a graphical user interface–based MATLAB application that performs key steps in QSP model development and analyses. The capabilities of gQSPSim include (i) model calibration using global and local optimization methods, (ii) development of virtual subjects to explore variability and uncertainty in the represented biology, and (iii) simulations of virtual populations for different interventions. gQSPSim works with SimBiology‐built models using components such as species, doses, variants, and rules. All functionalities are equipped with an interactive visualization interface and the ability to generate presentation‐ready figures. In addition, standardized gQSPSim sessions can be shared and saved for future extension and reuse. In this work, we demonstrate gQSPSim’s capabilities with a standard target‐mediated drug disposition model and a published model of anti‐proprotein convertase subtilisin/kexin type 9 (PCSK9) treatment of hypercholesterolemia. |
url |
https://doi.org/10.1002/psp4.12494 |
work_keys_str_mv |
AT irajhosseini gqspsimasimbiologybasedguiforstandardizedqspmodeldevelopmentandapplication AT justinfeigelman gqspsimasimbiologybasedguiforstandardizedqspmodeldevelopmentandapplication AT anitagajjala gqspsimasimbiologybasedguiforstandardizedqspmodeldevelopmentandapplication AT monicasusilo gqspsimasimbiologybasedguiforstandardizedqspmodeldevelopmentandapplication AT vidyaramakrishnan gqspsimasimbiologybasedguiforstandardizedqspmodeldevelopmentandapplication AT sarojaramanujan gqspsimasimbiologybasedguiforstandardizedqspmodeldevelopmentandapplication AT kapilgadkar gqspsimasimbiologybasedguiforstandardizedqspmodeldevelopmentandapplication |
_version_ |
1724553553398202368 |