Articlegold2021

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

Falk Schreiber · Padraig Gleeson · Martin Golebiewski · Thomas E. Gorochowski · Michael Hucka · Sarah Keating +5 more

5 citations0/0 files storedBerichte aus der medizinischen Informatik und Bioinformatik/Journal of integrative bioinformatics

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Scientific Computing and Data Management Research Data Management Practices Gene Regulatory Network Analysis

Abstract

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.

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2011Reproducible computational biology experiments with SED-ML - The Simulation Experiment Description Markup Language 2014COMBINE archive and OMEX format: one file to share all information to reproduce a modeling project 2015Promoting Coordinated Development of Community-Based Information Standards for Modeling in Biology: The COMBINE Initiative 2009BioModels.net Web Services, a free and integrated toolkit for computational modelling software 2020CellML 2.0 2020The first 10 years of the international coordination network for standards in systems and synthetic biology (COMBINE)2014Meeting report from the fourth meeting of the Computational Modeling in Biology Network (COMBINE)2021The simulation experiment description markup language (SED-ML): language specification for level 1 version 4

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