BioPartsDB: A synthetic biology workflow web-application for education and research

Giovanni Stracquadanio; Kun Yang; Jef D. Boeke; Joel S. Bader

doi:10.1093/bioinformatics/btw394

BioPartsDB: A synthetic biology workflow web-application for education and research

Giovanni Stracquadanio, Kun Yang, Jef D. Boeke, Joel S. Bader

Whiting School of Engineering

Research output: Contribution to journal › Article › peer-review

3 Scopus citations

Abstract

Synthetic biology has become a widely used technology, and expanding applications in research, education and industry require progress tracking for team-based DNA synthesis projects. Although some vendors are beginning to supply multi-kilobase sequence-verified constructs, synthesis workflows starting with short oligos remain important for cost savings and pedagogical benefit. We developed BioPartsDB as an open source, extendable workflow management system for synthetic biology projects with entry points for oligos and larger DNA constructs and ending with sequence-verified clones.

Original language	English (US)
Pages (from-to)	3519-3521
Number of pages	3
Journal	Bioinformatics
Volume	32
Issue number	22
DOIs	https://doi.org/10.1093/bioinformatics/btw394
State	Published - Nov 15 2016

ASJC Scopus subject areas

Statistics and Probability
Biochemistry
Molecular Biology
Computer Science Applications
Computational Theory and Mathematics
Computational Mathematics

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10.1093/bioinformatics/btw394

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abstract = "Synthetic biology has become a widely used technology, and expanding applications in research, education and industry require progress tracking for team-based DNA synthesis projects. Although some vendors are beginning to supply multi-kilobase sequence-verified constructs, synthesis workflows starting with short oligos remain important for cost savings and pedagogical benefit. We developed BioPartsDB as an open source, extendable workflow management system for synthetic biology projects with entry points for oligos and larger DNA constructs and ending with sequence-verified clones.",

author = "Giovanni Stracquadanio and Kun Yang and Boeke, {Jef D.} and Bader, {Joel S.}",

note = "Funding Information: This work was supported by National Science Foundation [grant number MCB-0718846] and National Institutes of Health [grant number P50GM107632] to J.D.B. and National Science Foundation [grant number MCB-1445545] to J.S.B. Conflicts of Interest: none declared. Publisher Copyright: {\textcopyright} 2016 The Author Published by Oxford University Press.",

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BioPartsDB: A synthetic biology workflow web-application for education and research

Abstract

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