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GeneGenie specifications

Information


Unique identifier OMICS_04731
Name GeneGenie
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Java
Computer skills Advanced
Version 1.9
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Neil Swainston

Information


Unique identifier OMICS_04731
Name GeneGenie
Interface Web user interface
Restrictions to use None
Programming languages Java
Computer skills Basic
Version 1.9
Stability Stable
Maintained Yes

Maintainer


  • person_outline Neil Swainston

Publication for GeneGenie

GeneGenie citations

 (3)
library_books

Engineering the “Missing Link” in Biosynthetic (−) Menthol Production: Bacterial Isopulegone Isomerase

2018
PMCID: 5937688
PMID: 29750129
DOI: 10.1021/acscatal.7b04115

[…] The wild-type gene sequence encoding the Δ5-3-ketosteroid isomerase from P. putida (UniProt ID: P07445) was designed using the GeneGenie online tool, containing a C-terminal His6-tag. Mutagenic oligonucleotides for the first-generation libraries encoding ambiguous codons for 16 residues were designed optimized for E. coli exp […]

library_books

Bioinformatics for the synthetic biology of natural products: integrating across the Design–Build–Test cycle

2016
PMCID: 5063057
PMID: 27185383
DOI: 10.1039/c6np00018e

[…] hich integrates functional, structural and evolutionary data, can be used to identify potential target residues.Having decided upon the target residues and type of variants to create, the design tool GeneGenie can be used to guide the de novo synthesis of variant libraries. GeneGenie designs DNA sequences optimized for expression in a desired host, includes any sequences required for downstream cl […]

library_books

Synthetic biology for the directed evolution of protein biocatalysts: navigating sequence space intelligently

2014
Chem Soc Rev
PMCID: 4349129
PMID: 25503938
DOI: 10.1039/c4cs00351a

[…] ions.As with most synthetic biology methods, the use of sequence design in silico is crucial to the successful synthesis in vitro. In the case of SpeedyGenes, a parallel, online software design tool, GeneGenie, was developed to automate the design of DNA sequences and the desired variant library. By calculating the melting temperature (T m) of the overlapping sequences, and minimising the potentia […]


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GeneGenie institution(s)
Manchester Institute of Biotechnology, The University of Manchester, Manchester, UK
GeneGenie funding source(s)
Biotechnology and Biological Sciences Research Council; Engineering and Physical Sciences Faculty, University of Manchester

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