GeMS statistics

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GeMS specifications


Unique identifier OMICS_08748
Name GeMS
Alternative name Gene Morphing System
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Input data Protein or DNA sequence
Operating system Unix/Linux
Programming languages Python
Computer skills Medium
Stability No
Maintained No


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Publications for Gene Morphing System

GeMS in publications

PMCID: 5039670
PMID: 27677461
DOI: 10.1038/srep34420

[…] the snp calling analyses were performed based on these reads., we obtained three sets of snp calling results generated by the genome analysis toolkit (gatk), samtools and genotype model selection (gems), respectively. we implemented strict criteria to filter potential false positive snps (please refer to the materials and methods for details). on average, the gatk obtained 823.34 snps, […]

PMCID: 4186344
PMID: 25340050
DOI: 10.3389/fbioe.2014.00041

[…] software applications have been created to aid gene redesign and customization for synthesis. few of these tools were unattainable at the time of this study. these include upgene (gao et al., ), gene morphing system (gems) (jayaraj et al., ), and gene composer (lorimer et al., ). the basic functionality of these programs can be largely found in other currently available tools., […]

PMCID: 4137594
PMID: 25161694
DOI: 10.1155/2014/369681

[…] gc content, minimization of hairpin structures within the gene, and/or of secondary structures in the n-terminal codons [, ]. the free software tools proposed in literature include, for instance, gems (web-based application, []), optimizer (web-based application, []), synthetic gene designer (web-based application, []), and gene designer (stand-alone application, []). all the tools mainly […]

PMCID: 3344903
PMID: 22574193
DOI: 10.1371/journal.pone.0036607

[…] series of new methods such as the dual asymmetric pcr and assemble pcr were developed , . to facilitate the design and assemble of the oligonucleotides, softwares such as dnaworks , gene2oligo , and gems were developed to make all the oligonucleotides thermodynamically unity. however, such one-step gene synthesis method has its limitations in synthesizing long dna sequences., generally, […]

PMCID: 3056764
PMID: 21371320
DOI: 10.1186/1475-2859-10-15

[…] recommended protocol. all other reagents were obtained from sigma (usa), seven versions of the calf prochymosin a gene were designed and constructed. the variant v0 was designed using the software gems [] and a codon table containing only the most abundant codon found in the entire genome of e. coli w3110 for each amino acid. the variant v1 was designed using the one amino acid-one codon […]

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GeMS institution(s)
KOSAN Biosciences Inc, Hayward, CA, USA
GeMS funding source(s)
Supported by National Science Foundation (DBI0646024); National Institutes of Health (R01GM070795); National Natural Science Foundation of China (30870572).

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