| Literature DB >> 31199770 |
Curtis Madsen1, Angel Goñi Moreno2, Umesh P3, Zachary Palchick4, Nicholas Roehner5, Christian Atallah2, Bryan Bartley5, Kiri Choi6, Robert Sidney Cox7, Thomas Gorochowski8, Raik Grünberg9, Chris Macklin10, James McLaughlin2, Xianwei Meng11, Tramy Nguyen12, Matthew Pocock13, Meher Samineni12, James Scott-Brown14, Ysis Tarter10, Michael Zhang12, Zhen Zhang15, Zach Zundel12, Jacob Beal5, Michael Bissell10, Kevin Clancy16, John H Gennari6, Goksel Misirli17, Chris Myers12, Ernst Oberortner11, Herbert Sauro6, Anil Wipat2.
Abstract
Synthetic biology builds upon the techniques and successes of genetics, molecular biology, and metabolic engineering by applying engineering principles to the design of biological systems. The field still faces substantial challenges, including long development times, high rates of failure, and poor reproducibility. One method to ameliorate these problems is to improve the exchange of information about designed systems between laboratories. The synthetic biology open language (SBOL) has been developed as a standard to support the specification and exchange of biological design information in synthetic biology, filling a need not satisfied by other pre-existing standards. This document details version 2.3.0 of SBOL, which builds upon version 2.2.0 published in last year's JIB Standards in Systems Biology special issue. In particular, SBOL 2.3.0 includes means of succinctly representing sequence modifications, such as insertion, deletion, and replacement, an extension to support organization and attachment of experimental data derived from designs, and an extension for describing numerical parameters of design elements. The new version also includes specifying types of synthetic biology activities, unambiguous locations for sequences with multiple encodings, refinement of a number of validation rules, improved figures and examples, and clarification on a number of issues related to the use of external ontology terms.Keywords: Standards; Synthetic Biology; Synthetic Biology Open Language
Mesh:
Year: 2019 PMID: 31199770 PMCID: PMC6798821 DOI: 10.1515/jib-2019-0025
Source DB: PubMed Journal: J Integr Bioinform ISSN: 1613-4516