Designing and implementing algorithmic DNA assembly pipelines for multi-gene systems

Szu Yi Hsu, Michael J. Smanski

Research output: Chapter in Book/Report/Conference proceedingChapter

Abstract

Advances in DNA synthesis and assembly technology allow for the high-throughput fabrication of hundreds to thousands of multi-part genetic constructs in a short time. This allows for rapid hypothesis-testing and genetic optimization in multi-gene biological systems. Here, we discuss key considerations to design and implement an algorithmic DNA assembly pipeline that provides the freedom to change nearly any design variable in a multi-gene system. In addition to considerations for pipeline design, we describe protocols for three useful molecular biology techniques in plasmid construction.

LanguageEnglish (US)
Title of host publicationMethods in Molecular Biology
PublisherHumana Press Inc.
Pages131-147
Number of pages17
Volume1671
DOIs
StatePublished - Jan 1 2018

Publication series

NameMethods in Molecular Biology
Volume1671
ISSN (Print)1064-3745

Fingerprint

DNA
Genetic Testing
Genes
Molecular Biology
Plasmids
Technology

Keywords

  • BioDesign automation
  • DNA assembly
  • Genetic refactoring
  • Golden Gate assembly
  • Isothermal assembly
  • PCR-ligation

PubMed: MeSH publication types

  • Journal Article

Cite this

Hsu, S. Y., & Smanski, M. J. (2018). Designing and implementing algorithmic DNA assembly pipelines for multi-gene systems. In Methods in Molecular Biology (Vol. 1671, pp. 131-147). (Methods in Molecular Biology; Vol. 1671). Humana Press Inc.. DOI: 10.1007/978-1-4939-7295-1_9

Designing and implementing algorithmic DNA assembly pipelines for multi-gene systems. / Hsu, Szu Yi; Smanski, Michael J.

Methods in Molecular Biology. Vol. 1671 Humana Press Inc., 2018. p. 131-147 (Methods in Molecular Biology; Vol. 1671).

Research output: Chapter in Book/Report/Conference proceedingChapter

Hsu, SY & Smanski, MJ 2018, Designing and implementing algorithmic DNA assembly pipelines for multi-gene systems. in Methods in Molecular Biology. vol. 1671, Methods in Molecular Biology, vol. 1671, Humana Press Inc., pp. 131-147. DOI: 10.1007/978-1-4939-7295-1_9
Hsu SY, Smanski MJ. Designing and implementing algorithmic DNA assembly pipelines for multi-gene systems. In Methods in Molecular Biology. Vol. 1671. Humana Press Inc.2018. p. 131-147. (Methods in Molecular Biology). Available from, DOI: 10.1007/978-1-4939-7295-1_9
Hsu, Szu Yi ; Smanski, Michael J./ Designing and implementing algorithmic DNA assembly pipelines for multi-gene systems. Methods in Molecular Biology. Vol. 1671 Humana Press Inc., 2018. pp. 131-147 (Methods in Molecular Biology).
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