Waltemath, Dagmar and Golebiewski, Martin and Blinov, Michael L. and Gleeson, Padraig and Hermjakob, Henning and Hucka, Michael and Inau, Esther Thea and Keating, Sarah M. and König, Matthias and Krebs, Olga and Malik-Sheriff, Rahuman S. and Nickerson, David and Oberortner, Ernst and Sauro, Herbert M. and Schreiber, Falk and Smith, Lucian and Stefan, Melanie I. and Wittig, Ulrike and Myers, Chris J. (2020) The first 10 years of the international coordination network for standards in systems and synthetic biology (COMBINE). Journal of Integrative Bioinformatics, 17 (2-3). Art. No. 20200005. ISSN 1613-4516. https://resolver.caltech.edu/CaltechAUTHORS:20200708-073700691
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Abstract
This paper presents a report on outcomes of the 10th Computational Modeling in Biology Network (COMBINE) meeting that was held in Heidelberg, Germany, in July of 2019. The annual event brings together researchers, biocurators and software engineers to present recent results and discuss future work in the area of standards for systems and synthetic biology. The COMBINE initiative coordinates the development of various community standards and formats for computational models in the life sciences. Over the past 10 years, COMBINE has brought together standard communities that have further developed and harmonized their standards for better interoperability of models and data. COMBINE 2019 was co-located with a stakeholder workshop of the European EU-STANDS4PM initiative that aims at harmonized data and model standardization for in silico models in the field of personalized medicine, as well as with the FAIRDOM PALs meeting to discuss findable, accessible, interoperable and reusable (FAIR) data sharing. This report briefly describes the work discussed in invited and contributed talks as well as during breakout sessions. It also highlights recent advancements in data, model, and annotation standardization efforts. Finally, this report concludes with some challenges and opportunities that this community will face during the next 10 years.
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Additional Information: | © 2020 Dagmar Waltemath et al., published by De Gruyter, Berlin/Boston. This work is licensed under the Creative Commons Attribution 4.0 Public License. BY 4.0 Received: 2020-02-18; Accepted: 2020-05-14; Published Online: 2020-06-29. The 2019 COMBINE meeting was supported by the German Research Foundation DFG (grant #MU 3099/4-1), by the Heidelberg Institute for Theoretical Studies (HITS), by the European coordination action EU-STANDS4PM (grant #825843 in the EU H2020 programme under the Health research collaborative programme), the German Federal Ministry of Education and Research (BMBF) through the German Network for Bioinformatics Infrastructure (de.NBI) and the German research network Systems Medicine of the Liver (LiSyM), as well as from the Klaus Tschira Foundation (KTS) and the University Medicine Greifswald. Travel grants for US-based students were provided by the NSF (grant #1928838). Author contribution: All the authors have accepted responsibility for the entire content of this submitted manuscript and approved submission. Research funding: This research was funded by the was supported by the German Research Foundation DFG (grant #MU 3099/4-1), by the Heidelberg Institute for Theoretical Studies (HITS), by the European coordination action EU-STANDS4PM (grant #825843 in the EU H2020 programme under the Health research collaborative programme), the German Federal Ministry of Education and Research (BMBF) through the German Network for Bioinformatics Infrastructure (de.NBI) and the German research network Systems Medicine of the Liver (LiSyM), as well as from the Klaus Tschira Foundation (KTS) and the University Medicine Greifswald. Travel grants for US-based students were provided by the NSF (grant #1928838). Employment or leadership: None declared. Honorarium: None declared. The authors declare no conflicts of interest regarding this article. | ||||||||||||||||||||
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Subject Keywords: | COMBINE; community building; meeting report; standardization | ||||||||||||||||||||
Issue or Number: | 2-3 | ||||||||||||||||||||
Record Number: | CaltechAUTHORS:20200708-073700691 | ||||||||||||||||||||
Persistent URL: | https://resolver.caltech.edu/CaltechAUTHORS:20200708-073700691 | ||||||||||||||||||||
Official Citation: | Waltemath, D., Golebiewski, M., Blinov, M., Gleeson, P., Hermjakob, H., Hucka, M., Inau, E., Keating, S., König, M., Krebs, O., Malik-Sheriff, R., Nickerson, D., Oberortner, E., Sauro, H., Schreiber, F., Smith, L., Stefan, M., Wittig, U., & Myers, C. (2020). The first 10 years of the international coordination network for standards in systems and synthetic biology (COMBINE), Journal of Integrative Bioinformatics, 17(2-3), 20200005. doi: https://doi.org/10.1515/jib-2020-0005 | ||||||||||||||||||||
Usage Policy: | No commercial reproduction, distribution, display or performance rights in this work are provided. | ||||||||||||||||||||
ID Code: | 104268 | ||||||||||||||||||||
Collection: | CaltechAUTHORS | ||||||||||||||||||||
Deposited By: | Tony Diaz | ||||||||||||||||||||
Deposited On: | 08 Jul 2020 15:40 | ||||||||||||||||||||
Last Modified: | 21 Sep 2020 20:25 |
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