Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2016

Abstract

SummaryStandards are essential to the advancement of science and technology. In systems and synthetic biology, numerous standards and associated tools have been developed over the last 16 years. This special issue of the Journal of Integrative Bioinformatics aims to support the exchange, distribution and archiving of these standards, as well as to provide centralised and easily citable access to them.Norms and requirements for objects, methods, processes and practices shape our everyday lives. Often they are represented in formal documents each describing a standard for a particular domain. The use of standards offers many benefits, such as improving the precision and efficiency of information exchange, reducing the cost of production, allowing parts from different producers to be combined or interchanged, and much more. Standards are not static, but develop and evolve with the progress of science and technology.When new, innovative areas (such as systems and synthetic biology) first emerge, they often either lack proper standards altogether, or the documents describing the standards in use are not available from a centralised location. To help develop and disseminate standards for systems and synthetic biology, the COMBINE (the 'COmputational Modeling in BIology' NEtwork) initiative was formed in 2010 [1]. This initiative "… is a network formed by the communities developing standards and formats to share computational models. Working This article is licensed under a Creative Commons Attribution-NonCommercial-NoDerivs 3.0 Unported License (http:// creativecommons.org/licenses/by-nc-nd/3.0/).

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

“…This editorial will present the latest specifications of all COMBINE standards, and this special issue highlights updates over the last year, namely the releases of the following specifications: OMEX Metadata Version 1.2, SED-ML Level 1 Version 4, SBOL Visual 2.3 and 3.0. Special issues on COMBINE standards have been published since 2016, and earlier editions [ 3 ], [ 4 ], [ 5 ], [ 6 ], [ 7 ] provide updates for the years 2015–2020.…”

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

“…The annual special issue on COMBINE standards has become a tradition since its launch in 2016. Earlier editions provide summaries of updates for the years 2015–18 [ 6 ], [ 7 ], [ 8 ], [ 9 ].…”