SBOL

SBOL-OWL: An Ontological Approach for Formal and Semantic Representation of Synthetic Biology Information

Standard representation of data is key for the reproducibility of designs in synthetic biology. The Synthetic Biology Open Language (SBOL) has already emerged as a data standard to represent information about genetic circuits, and it is based on …

Specifying Combinatorial Designs with the Synthetic Biology Open Language (SBOL)

As improvements in DNA synthesis technology and assembly methods make combinatorial assembly of genetic constructs increasingly accessible, methods for representing genetic constructs likewise need to improve to handle the exponential growth of …

Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2019

This special issue of the Journal of Integrative Bioinformatics presents an overview of COMBINE standards and their latest specifications. The standards cover representation formats for computational modeling in synthetic and systems biology and …

Synthetic Biology Open Language (SBOL) Version 2.3

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 …

Synthetic Biology Open Language Visual (SBOL Visual) Version 2.1

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 …

SBOLExplorer: Data Infrastructure and Data Mining for Genetic Design Repositories

Biology is a very noisy field. Experiments are difficult to reproduce, the mechanisms behind life are not well understood, and data that we do obtain is difficult to make sense of. Much like traditional engineering fields where engineers draw from a …

Software Compliance Testing for Workflows Using the Synthetic Biology Open Language

Data standards are integral for interoperability between software applications, since they provide guidelines for how data can be meaningfully exchanged and in a uniform manner. While standards provide a bridge for applications to share and translate …

sboljs: Bringing the Synthetic Biology Open Language to the Web Browser

The Synthetic Biology Open Language (SBOL) is a data standard for the representation of engineered biological systems. SBOL is implemented in the form of software libraries which can be used to add SBOL support to both new and existing software …

Synthetic Biology Open Language (SBOL) Version 2.2.0

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 …

SBOLDesigner: A Hierarchical Genetic Design Editor

Synthetic biology, as a field of research, applies electrical engineering, systems biology, and bioinformatics to genetic circuit design. Software tools are leveraged to provide rapid iteration through the design space, and data standards are used to …