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PartCrafter: Find, Generate, and Analyze BioParts

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    Rights statement: © The Author(s) 2019. Published by Oxford University Press. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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    Rights statement: VC The Author(s) 2019. Published by Oxford University Press. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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https://academic.oup.com/synbio/advance-article/doi/10.1093/synbio/ysz014/5511412
Original languageEnglish
Number of pages12
JournalSynthetic Biology
Volume4
Issue number1
Early online date4 Jun 2019
DOIs
Publication statusE-pub ahead of print - 4 Jun 2019

Abstract

The field of Synthetic Biology is both practically and philosophically reliant on the idea of BioParts — concrete DNA sequences meant to represent discrete functionalities. While there are a number of software tools which allow users to design complex DNA sequences by stitching together BioParts or genetic features into genetic devices, there is a lack of tools assisting Synthetic Biologists in finding BioParts and in generating new ones. In practice, researchers often find BioParts in an ad-hoc way. We present PartCrafter, a tool which extracts and aggregates genomic feature data in order to facilitate the search for new BioParts with specific functionalities. PartCrafter can also turn a genomic feature into a BioPart by packaging it according to any manufacturing standard, codon optimising it for a new host, and removing forbidden sites. PartCrafter is available at partcrafter.com.

    Research areas

  • parts-based design, bioparts, biobricks, search, data aggregation

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