Research Repository

BioPartsBuilder: A synthetic biology tool for combinatorial assembly of biological parts

Yang, K and Stracquadanio, G and Luo, J and Boeke, JD and Bader, JS (2016) 'BioPartsBuilder: A synthetic biology tool for combinatorial assembly of biological parts.' Bioinformatics, 32 (6). 937 - 939. ISSN 1367-4803

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Abstract

© 2015 The Author 2015. Published by Oxford University Press. Summary: Combinatorial assembly of DNA elements is an efficient method for building large-scale synthetic pathways from standardized, reusable components. These methods are particularly useful because they enable assembly of multiple DNA fragments in one reaction, at the cost of requiring that each fragment satisfies design constraints. We developed BioPartsBuilder as a biologist-friendly web tool to design biological parts that are compatible with DNA combinatorial assembly methods, such as Golden Gate and related methods. It retrieves biological sequences, enforces compliance with assembly design standards and provides a fabrication plan for each fragment. Availability and implementation: BioPartsBuilder is accessible at http://public.biopartsbuilder.org and an Amazon Web Services image is available from the AWS Market Place (AMI ID: ami-508acf38). Source code is released under the MIT license, and available for download at https://github.com/baderzone/biopartsbuilder. Contact: Supplementary information: Supplementary data are available at Bioinformatics online.

Item Type: Article
Subjects: Q Science > QA Mathematics > QA75 Electronic computers. Computer science
Divisions: Faculty of Science and Health > Computer Science and Electronic Engineering, School of
Depositing User: Giovanni Stracquadanio
Date Deposited: 09 Jan 2017 16:49
Last Modified: 27 Mar 2019 11:15
URI: http://repository.essex.ac.uk/id/eprint/18688

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