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Automated Visualization of Genetic Designs Using DNAplotlib

  • Vittorio Bartoli
  • Daniel O. R. Dixon
  • Thomas E. GorochowskiEmail author
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 1772)

Abstract

Visualization of complex genetic systems can help efficiently communicate important design features and clearly illustrate overall structures. To aid in the creation of such diagrams, standards such as the Synthetic Biology Open Language Visual (SBOLv) have been established to ensure that specific symbols and shapes convey the same meaning for genetic parts across the field. Here, we describe several ways that the computational tool DNAplotlib can be used to automate the generation of SBOLv standard-compliant diagrams covering simple genetic designs to large libraries of genetic constructs.

Keywords

Visualization Genetic design Standardization SBOLv Synthetic biology Systems biology 

Notes

Acknowledgments

T.E.G. was supported by BrisSynBio, a BBSRC/EPSRC Synthetic Biology Research Centre (grant BB/L01386X/1). V.B. and D.O.R.D acknowledge funding from the EPSRC & BBSRC Centre for Doctoral Training in Synthetic Biology (grant EP/L016494/1). We also thank Mario di Bernardo and Nigel Savery for comments.

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Copyright information

© Springer Science+Business Media, LLC, part of Springer Nature 2018

Authors and Affiliations

  • Vittorio Bartoli
    • 1
    • 2
  • Daniel O. R. Dixon
    • 1
    • 3
  • Thomas E. Gorochowski
    • 1
    • 4
    Email author
  1. 1.BrisSynBioUniversity of BristolBristolUK
  2. 2.Department of Engineering MathematicsUniversity of BristolBristolUK
  3. 3.School of BiochemistryUniversity of BristolBristolUK
  4. 4.School of Biological SciencesUniversity of BristolBristolUK

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