Computational models for clinical applications in personalized medicine—guidelines and recommendations for data integration and model validation

CB Collin, T Gebhardt, M Golebiewski… - Journal of personalized …, 2022 - mdpi.com
The future development of personalized medicine depends on a vast exchange of data from
different sources, as well as harmonized integrative analysis of large-scale clinical health …

BioSimulators: a central registry of simulation engines and services for recommending specific tools

B Shaikh, LP Smith, D Vasilescu… - Nucleic acids …, 2022 - academic.oup.com
Computational models have great potential to accelerate bioscience, bioengineering, and
medicine. However, it remains challenging to reproduce and reuse simulations, in part …

Modeling should be an independent scientific discipline

J Cabot, A Vallecillo - Software and Systems Modeling, 2022 - Springer
Software modeling started as a paradigm to help developers build better software faster by
enabling them to specify, reason and manipulate software systems at a higher-abstraction …

[HTML][HTML] Construction of multiscale genome-scale metabolic models: frameworks and challenges

X Bi, Y Liu, J Li, G Du, X Lv, L Liu - Biomolecules, 2022 - mdpi.com
Genome-scale metabolic models (GEMs) are effective tools for metabolic engineering and
have been widely used to guide cell metabolic regulation. However, the single gene–protein …

[PDF][PDF] EU-STANDS4PM consortium; et al. Computational models for clinical applications in personalized medicine—Guidelines and recommendations for data …

CB Collin, T Gebhardt, M Golebiewski, T Karaderi… - J. Pers. Med, 2022 - academia.edu
The future development of personalized medicine depends on a vast exchange of data from
different sources, as well as harmonized integrative analysis of large-scale clinical health …

Specifications of standards in systems and synthetic biology: status and developments in 2020

F Schreiber, B Sommer, T Czauderna… - Journal of Integrative …, 2020 - degruyter.com
Specifications of standards in systems and synthetic biology: status and developments in 2020
Skip to content Should you have institutional access? Here's how to get it ... De Gruyter € EUR …

Specifications of standards in systems and synthetic biology: status and developments in 2022 and the COMBINE meeting 2022

M König, P Gleeson, M Golebiewski… - Journal of Integrative …, 2023 - degruyter.com
This special issue of the Journal of Integrative Bioinformatics contains updated
specifications of COMBINE standards in systems and synthetic biology. The 2022 special …

RunBioSimulations: an extensible web application that simulates a wide range of computational modeling frameworks, algorithms, and formats

B Shaikh, G Marupilla, M Wilson, ML Blinov… - Nucleic acids …, 2021 - academic.oup.com
Comprehensive, predictive computational models have significant potential for science,
bioengineering, and medicine. One promising way to achieve more predictive models is to …

The BioRECIPE knowledge representation format

E Holtzapple, G Zhou, H Luo, D Tang… - ACS Synthetic …, 2024 - ACS Publications
The BioRECIPE (Biological system Representation for Evaluation, Curation, Interoperability,
Preserving, and Execution) knowledge representation format was introduced to standardize …