SBOL Examples

2019 (Data Model Examples)

Nicholas Roehner, Bryan Bartley, Jacob Beal, James McLaughlin, Matthew Pocock, Michael Zhang, Zach Zundel, Chris J. Myers

July 2019

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 combinatorial design space. To this end, we present a community accepted…

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SBOL 2.0 Examples

CRISPR Repression Model SBOL file example

VisBol Toggle Switch example

Genetic Toggle Switch example
Four-input AND gate example

SBOL 2.0 Specification examples

GeneticToggleSwitch Systems Biology Model example

Directed Acyclic Genetic Circuit examples

Further SBOL 2.0 examples are in the SBOL test suite. This comprehensive set of data files includes in addition to more SBOL 2.0 files, SBOL 1.1 files used to test conversion to SBOL 2.0, GenBank files used to test conversion to SBOL 2.0, and invalid SBOL 2.0 files used to test validation.

SBOL 1.1 Examples

NBT Examples: pIKE and pTAK_cassettes
NBT Example: pIKE and pTAK partial cassettes
NBT Example: pIKE and pTAK toggle switches