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Model integration in computational biology : the role of reproducibility, credibility and utility
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Karr, Jonathan, Sheriff, Rahuman S. Malik, Osborne, James, Gonzalez-Parra, Gilberton, Forgoston, Eric, Bowness, Ruth, Liu, Yaling, Thompson, Robin N., Garira, Winston , Barhak, Jacob, Rice, John, Torres, Marcella, Dobrovolny, Hana Maria, Tang, Tingting, Waites, William , Glazier, James A., Faeder, James and Kulesza, Alexander (2022) Model integration in computational biology : the role of reproducibility, credibility and utility. Frontiers in Systems Biology, 2 . 822606. doi:10.3389/fsysb.2022.822606 ISSN 2674-0702.
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Official URL: https://doi.org/10.3389/fsysb.2022.822606
Abstract
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.
| Item Type: | Journal Article | ||||||||||||||||||||||||||||||
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| Subjects: | Q Science > Q Science (General) R Medicine > RA Public aspects of medicine > RA0421 Public health. Hygiene. Preventive Medicine |
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| Divisions: | Faculty of Science, Engineering and Medicine > Science > Mathematics | ||||||||||||||||||||||||||||||
| Library of Congress Subject Headings (LCSH): | Communicable diseases -- Transmission -- Mathematical models, Communicable diseases -- Transmission -- Computer simulation, Epidemics -- Mathematical models, Epidemics -- Computer simulation, Reproducible research | ||||||||||||||||||||||||||||||
| Journal or Publication Title: | Frontiers in Systems Biology | ||||||||||||||||||||||||||||||
| Publisher: | Frontiers Media | ||||||||||||||||||||||||||||||
| ISSN: | 2674-0702 | ||||||||||||||||||||||||||||||
| Official Date: | 7 March 2022 | ||||||||||||||||||||||||||||||
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| Volume: | 2 | ||||||||||||||||||||||||||||||
| Article Number: | 822606 | ||||||||||||||||||||||||||||||
| DOI: | 10.3389/fsysb.2022.822606 | ||||||||||||||||||||||||||||||
| Status: | Peer Reviewed | ||||||||||||||||||||||||||||||
| Publication Status: | Published | ||||||||||||||||||||||||||||||
| Access rights to Published version: | Open Access (Creative Commons) | ||||||||||||||||||||||||||||||
| Date of first compliant deposit: | 7 February 2022 | ||||||||||||||||||||||||||||||
| Date of first compliant Open Access: | 8 March 2022 | ||||||||||||||||||||||||||||||
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