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Goksel Misirli's Outputs (5)

The Synthetic Biology Open Language (SBOL) Version 3: Simplified Data Exchange for Bioengineering (2020)
Journal Article
Grünberg, R., Bartley, B., Scott-Brown, J., Vaidyanathan, P., Fontanarrosa, P., Oberortner, E., Wipat, A., Gorochowski, T., Myers, C., McLaughlin, J., Beal, J., & Misirli, G. (2020). The Synthetic Biology Open Language (SBOL) Version 3: Simplified Data Exchange for Bioengineering. Frontiers in Bioengineering and Biotechnology, https://doi.org/10.3389/fbioe.2020.01009

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. W... Read More about The Synthetic Biology Open Language (SBOL) Version 3: Simplified Data Exchange for Bioengineering.

Synthetic biology open language (SBOL) version 3.0.0. (2020)
Journal Article
Bartley, B., Beal, J., McLaughlin, J., Vaidyanathan, P., Baig, H., Fontanarrosa, P., Kulkarni, V., Crowther, M., Gorochowski, T., Grünberg, R., Scott-Brown, J., Oberortner, E., Misirli, G., Wipat, A., & Myers, C. (2020). Synthetic biology open language (SBOL) version 3.0.0. Journal of Integrative Bioinformatics, https://doi.org/10.1515/jib-2020-0017

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 mu... Read More about Synthetic biology open language (SBOL) version 3.0.0..

Synthetic biology open language visual (SBOL visual) version 2.2 (2020)
Journal Article
Baig, H., Fontanarrosa, P., Kulkarni, V., McLaughlin, J., Vaidyanathan, P., Bartley, B., Bhatia, S., Bhakta, S., Bissell, M., Clancy, K., Cox, R. S., Moreno, A. G., Gorochowski, T., Grunberg, R., Luna, A., Madsen, C., Misirli, G., Nguyen, T., Le Novere, N., Palchick, Z., …Myers, C. (2020). Synthetic biology open language visual (SBOL visual) version 2.2. Journal of Integrative Bioinformatics, 17(2-3), Article 20200014. https://doi.org/10.1515/jib-2020-0014

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 oth... Read More about Synthetic biology open language visual (SBOL visual) version 2.2.

ShortBOL: A language for scripting designs for engineered biological systems using SyntheticBiology Open Language (SBOL). (2020)
Journal Article
Misirli. (2020). ShortBOL: A language for scripting designs for engineered biological systems using SyntheticBiology Open Language (SBOL). ACS synthetic biology, 962-966. https://doi.org/10.1021/acssynbio.9b00470

The Synthetic Biology Open Language (SBOL) is an emerging synthetic biology data exchange standard, designed primarily for unambiguous and efficient machine-to-machine communication. However, manual editing of SBOL is generally difficult for non-triv... Read More about ShortBOL: A language for scripting designs for engineered biological systems using SyntheticBiology Open Language (SBOL)..