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Updated: Dec 15, 2025

Analyzing and Building Nucleic Acid Structures with 3DNA
Published on: April 26, 2013
DNA Chisel, a versatile sequence optimizer
Valentin Zulkower1, Susan Rosser1
1Edinburgh Genome Foundry, SynthSys, School of Biological Sciences, University of Edinburgh, Edinburgh EH93BF, UK.
Motivation:
Accounting for biological and practical requirements in DNA sequence design often results in challenging optimization problems. Current software solutions are problem-specific and hard to combine.
Results:
DNA Chisel is an easy-to-use, easy-to-extend sequence optimization framework allowing to freely define and combine optimization specifications via Python scripts or Genbank annotations.
Availability And Implementation:
The framework is available as a web application (https://cuba.genomefoundry.org/sculpt_a_sequence) or open-source Python library (see at https://github.com/Edinburgh-Genome-Foundry/DNAChisel for code and documentation).
Supplementary Information:
Supplementary data are available at Bioinformatics online.
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