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Items: 16

1.

REBASE--a database for DNA restriction and modification: enzymes, genes and genomes.

Roberts RJ, Vincze T, Posfai J, Macelis D.

Nucleic Acids Res. 2010 Jan;38(Database issue):D234-6. doi: 10.1093/nar/gkp874. Epub 2009 Oct 21.

2.

Design parameters to control synthetic gene expression in Escherichia coli.

Welch M, Govindarajan S, Ness JE, Villalobos A, Gurney A, Minshull J, Gustafsson C.

PLoS One. 2009 Sep 14;4(9):e7002. doi: 10.1371/journal.pone.0007002.

3.

Computational design tools for synthetic biology.

Marchisio MA, Stelling J.

Curr Opin Biotechnol. 2009 Aug;20(4):479-85. doi: 10.1016/j.copbio.2009.08.007. Epub 2009 Sep 14. Review.

PMID:
19758796
4.

TmPrime: fast, flexible oligonucleotide design software for gene synthesis.

Bode M, Khor S, Ye H, Li MH, Ying JY.

Nucleic Acids Res. 2009 Jul;37(Web Server issue):W214-21. doi: 10.1093/nar/gkp461. Epub 2009 Jun 10.

5.

Writing DNA with GenoCAD.

Czar MJ, Cai Y, Peccoud J.

Nucleic Acids Res. 2009 Jul;37(Web Server issue):W40-7. doi: 10.1093/nar/gkp361. Epub 2009 May 8.

6.

Gene synthesis demystified.

Czar MJ, Anderson JC, Bader JS, Peccoud J.

Trends Biotechnol. 2009 Feb;27(2):63-72. doi: 10.1016/j.tibtech.2008.10.007. Epub 2008 Dec 26. Review.

PMID:
19111926
7.

Teaching synthetic biology, bioinformatics and engineering to undergraduates: the interdisciplinary Build-a-Genome course.

Dymond JS, Scheifele LZ, Richardson S, Lee P, Chandrasegaran S, Bader JS, Boeke JD.

Genetics. 2009 Jan;181(1):13-21. doi: 10.1534/genetics.108.096784. Epub 2008 Nov 17.

8.

OPTIMIZER: a web server for optimizing the codon usage of DNA sequences.

Puigbò P, Guzmán E, Romeu A, Garcia-Vallvé S.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W126-31. Epub 2007 Apr 16.

9.

USER friendly DNA engineering and cloning method by uracil excision.

Bitinaite J, Rubino M, Varma KH, Schildkraut I, Vaisvila R, Vaiskunaite R.

Nucleic Acids Res. 2007;35(6):1992-2002. Epub 2007 Mar 6.

10.

Gene Designer: a synthetic biology tool for constructing artificial DNA segments.

Villalobos A, Ness JE, Gustafsson C, Minshull J, Govindarajan S.

BMC Bioinformatics. 2006 Jun 6;7:285.

11.

GeneDesign: rapid, automated design of multikilobase synthetic genes.

Richardson SM, Wheelan SJ, Yarrington RM, Boeke JD.

Genome Res. 2006 Apr;16(4):550-6. Epub 2006 Feb 15.

12.

Gene2Oligo: oligonucleotide design for in vitro gene synthesis.

Rouillard JM, Lee W, Truan G, Gao X, Zhou X, Gulari E.

Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W176-80.

13.
15.

Codon usage in yeast: cluster analysis clearly differentiates highly and lowly expressed genes.

Sharp PM, Tuohy TM, Mosurski KR.

Nucleic Acids Res. 1986 Jul 11;14(13):5125-43.

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