Goksel Misirli's Outputs (6)

Virtual Parts Repository 2: Model-Driven Design of Genetic Regulatory Circuits (2021)
Journal Article
Yang, B., James, K., Wipat, A., & Misirli, G. (2021). Virtual Parts Repository 2: Model-Driven Design of Genetic Regulatory Circuits. ACS synthetic biology, 3304-3315. https://doi.org/10.1021/acssynbio.1c00157

Engineering genetic regulatory circuits is key to the creation of biological applications that are responsive to environmental changes. Computational models can assist in understanding especially large and complex circuits for which manual analysis i... Read More about Virtual Parts Repository 2: Model-Driven Design of Genetic Regulatory Circuits.

Synthetic biology open language visual (SBOL visual) version 3.0. (2021)
Journal Article
Baig, H., Myers, C., McLaughlin, J., Scott-Brown, J., Vaidyanathan, P., Gorochowski, T., …Fontanarossa, P. (2021). Synthetic biology open language visual (SBOL visual) version 3.0. Journal of Integrative Bioinformatics, https://doi.org/10.1515/jib-2021-0013

People who engineer biological organisms often find it useful to draw diagrams in order to communicate both the structure of the nucleic acid sequences that they are engineering and the functional relationships between sequence features and other mol... Read More about Synthetic biology open language visual (SBOL visual) version 3.0..

OMEX metadata specification (version 1.2). (2021)
Journal Article
Nickerson, D., Waltemath, D., Gennari, J., König, M., Misirli, G., & Neal, M. (2021). OMEX metadata specification (version 1.2). Journal of Integrative Bioinformatics, https://doi.org/10.1515/jib-2021-0020

A standardized approach to annotating computational biomedical models and their associated files can facilitate model reuse and reproducibility among research groups, enhance search and retrieval of models and data, and enable semantic comparisons be... Read More about OMEX metadata specification (version 1.2)..

Modelling The Fitness Landscapes of a SCRaMbLEd Yeast Genome (2021)
Presentation / Conference
Misirli. (2021, October). Modelling The Fitness Landscapes of a SCRaMbLEd Yeast Genome. Presented at 2021 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB)

Towards collaborative and automated development of resources for data standards in synthetic biology (2021)
Journal Article
Gorochowski, T., Myers, C., Misirli, G., Ajibode, J., Beal, J., & Scott-Brown, J. (2021). Towards collaborative and automated development of resources for data standards in synthetic biology

Synthetic biology open language visual (SBOL Visual) version 2.3. (2021)
Journal Article
Madsen, C., Misirli, G., Palchick, Z., Pocock, M., Roehner, N., Sauro, H., …Bartley Bartley, B. (2021). Synthetic biology open language visual (SBOL Visual) version 2.3

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 2.3..