SBOL

Synthetic biology open language (SBOL) version 3.0.0

Synthetic biology builds upon genetics, molecular biology, and metabolic engineering by applying engineering principles to the design of biological systems. When designing a synthetic system, synthetic biologists need to exchange information about …

Synthetic biology open language visual (SBOL visual) version 2.2

People who are engineering biological organisms often find it useful to communicate in diagrams, both about the structure of the nucleic acid sequences that they are engineering and about the functional relationships between sequence features and …

Extending SynBioHub’s Functionality with Plugins

SynBioHub is a repository for synthetic genetic designs represented in the Synthetic Biology Open Language (SBOL). To integrate SynBioHub into more synthetic biology workflows, its data processing capabilities need to be expanded. To this end, a …

SBOL Visual 2 Ontology

The Synthetic Biology Open Language (SBOL) Version 3: Simplified Data Exchange for Bioengineering

The Synthetic Biology Open Language (SBOL) is a community-developed data standard that allows knowledge about biological designs to be captured using a machine-tractable, ontology-backed representation that is built using Semantic Web technologies. …

Asynchronous Genetic Design

Synthetic biology is applying engineering concepts to biological processes to enable genetic circuit designs, among other applications. As more biological parts are being discovered, it is vital to have an automated procedure to allow complex circuit …

Improving Authentication and Authorization on SynBioHub

Synthetic Biology is an emerging discipline which uses engineering principles to shape biological behavior. The Synthetic Biology Open Language (SBOL) is a standard for describing biological constructs which enables engineering workflows that …

SBOLExplorer: Data Infrastructure and Data Mining for Genetic Design Repositories

A Computational Workflow for the Automated Generation of Models of Genetic Designs

Computational models are essential to engineer predictable biological systems and to scale up this process for complex systems. Computational modeling often requires expert knowledge and data to build models. Clearly, manual creation of models is not …

pySBOL: A Python Package for Genetic Design Automation and Standardization

This paper presents pySBOL, a software library for computer-aided design of synthetic biological systems in the Python scripting language. This library provides an easy-to-use, object-oriented, application programming interface (API) with low barrier …