Specifications of standards in systems and synthetic biology: status and developments in 2021

Creators: Schreiber, Falk; Gleeson, Padraig; Golebiewski, Martin; Gorochowski, Thomas E.; Hucka, Michael; Keating, Sarah M.; König, Matthias; Myers, Chris J.; Nickerson, David P.; Sommer, Björn; Waltemath, Dagmar

Abstract

This special issue of the Journal of Integrative Bioinformatics contains updated specifications of COMBINE standards in systems and synthetic biology. The 2021 special issue presents four updates of standards: Synthetic Biology Open Language Visual Version 2.3, Synthetic Biology Open Language Visual Version 3.0, Simulation Experiment Description Markup Language Level 1 Version 4, and OMEX Metadata specification Version 1.2. This document can also be consulted to identify the latest specifications of all COMBINE standards.

Additional Information

© 2021 Falk Schreiber et al., published by De Gruyter. This work is licensed under the Creative Commons Attribution 4.0 International License. We thank all members of the COMBINE initiative for their help. DPN is supported by the National Institutes of Health [P41EB023912]. MG is funded by the European Union Horizon2020 framework programme of the European Commission Directorate-General for Research and Innovation (grant 825843) as part of the EU-STANDS4PM project (European standardization framework for data integration and data-driven in silico models for personalised medicine), as well as by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation, grant NFDI 13/1) as part of the German Research Data Infrastructure Consortium NFDI4Health (www.nfdi4health.de). MK and MG are supported by the Federal Ministry of Education and Research (BMBF, Germany) within the research network Systems Medicine of the Liver (LiSyM, grant numbers 031L0054 and 031L0056). MK is also supported by the DFG within the Research Unit Programme FOR 5151 "QuaLiPerF (Quantifying Liver Perfusion–Function Relationship in Complex Resection—-A Systems Medicine Approach)" by grant 436883643. Author contribution: All authors have accepted responsibility for the entire content of this manuscript and approved its submission. Research funding: None declared. Authors state no conflict of interest.

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Published - 10.1515_jib-2021-0026.pdf

Supplemental Material - suppl_j_jib-2021-0026_suppl.zip

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