TY - JOUR
T1 - Model Integration in Computational Biology
T2 - The Role of Reproducibility, Credibility and Utility
AU - Karr, Jonathan
AU - Malik-Sheriff, Rahuman S.
AU - Osborne, James
AU - Gonzalez-Parra, Gilberto
AU - Forgoston, Eric
AU - Bowness, Ruth
AU - Liu, Yaling
AU - Thompson, Robin
AU - Garira, Winston
AU - Barhak, Jacob
AU - Rice, John
AU - Torres, Marcella
AU - Dobrovolny, Hana M.
AU - Tang, Tingting
AU - Waites, William
AU - Glazier, James A.
AU - Faeder, James R.
AU - Kulesza, Alexander
N1 - Publisher Copyright:
Copyright © 2022 Karr, Malik-Sheriff, Osborne, Gonzalez-Parra, Forgoston, Bowness, Liu, Thompson, Garira, Barhak, Rice, Torres, Dobrovolny, Tang, Waites, Glazier, Faeder and Kulesza.
PY - 2022
Y1 - 2022
N2 - During the COVID-19 pandemic, mathematical modeling of disease transmission has become a cornerstone of key state decisions. To advance the state-of-the-art host viral modeling to handle future pandemics, many scientists working on related issues assembled to discuss the topics. These discussions exposed the reproducibility crisis that leads to inability to reuse and integrate models. This document summarizes these discussions, presents difficulties, and mentions existing efforts towards future solutions that will allow future model utility and integration. We argue that without addressing these challenges, scientists will have diminished ability to build, disseminate, and implement high-impact multi-scale modeling that is needed to understand the health crises we face.
AB - During the COVID-19 pandemic, mathematical modeling of disease transmission has become a cornerstone of key state decisions. To advance the state-of-the-art host viral modeling to handle future pandemics, many scientists working on related issues assembled to discuss the topics. These discussions exposed the reproducibility crisis that leads to inability to reuse and integrate models. This document summarizes these discussions, presents difficulties, and mentions existing efforts towards future solutions that will allow future model utility and integration. We argue that without addressing these challenges, scientists will have diminished ability to build, disseminate, and implement high-impact multi-scale modeling that is needed to understand the health crises we face.
KW - computational modeling
KW - credibility
KW - crisis
KW - reproducibility
KW - simulation
UR - http://www.scopus.com/inward/record.url?scp=85128271461&partnerID=8YFLogxK
U2 - 10.3389/fsysb.2022.822606
DO - 10.3389/fsysb.2022.822606
M3 - Review article
AN - SCOPUS:85128271461
SN - 2674-0702
VL - 2
JO - Frontiers in Systems Biology
JF - Frontiers in Systems Biology
M1 - 822606
ER -