Stephen Freeland

Summary

Affiliation: University of Maryland
Country: USA

Publications

  1. pmc SGDB: a database of synthetic genes re-designed for optimizing protein over-expression
    Gang Wu
    Department of Biological Sciences, University of Maryland at Baltimore County, 1000 Hilltop Circle, Baltimore, MD 21229, USA
    Nucleic Acids Res 35:D76-9. 2007
  2. pmc On the evolution of the standard amino-acid alphabet
    Yi Lu
    Department of Biological Sciences, University of Maryland, Baltimore County, Baltimore, MD 21250, USA
    Genome Biol 7:102. 2006
  3. pmc An interactive visualization tool to explore the biophysical properties of amino acids and their contribution to substitution matrices
    Blazej Bulka
    Department of Biological Sciences, University of Maryland, Baltimore County, 1000 Hilltop Circle, Baltimore, MD 21250, USA
    BMC Bioinformatics 7:329. 2006
  4. ncbi request reprint The case for an error minimizing standard genetic code
    Stephen J Freeland
    Department of Biology, University of Maryland, Baltimore County, Catonsville, MD, USA
    Orig Life Evol Biosph 33:457-77. 2003
  5. ncbi request reprint The standard genetic code enhances adaptive evolution of proteins
    Wen Zhu
    Department of Biological Sciences, University of Maryland Baltimore County, Baltimore, MD 21250, USA
    J Theor Biol 239:63-70. 2006
  6. ncbi request reprint Evolution encoded
    Stephen J Freeland
    University of Maryland, Baltimore County, USA
    Sci Am 290:84-91. 2004
  7. ncbi request reprint The Synthetic Gene Designer: a flexible web platform to explore sequence manipulation for heterologous expression
    Gang Wu
    Department of Biological Sciences, University of Maryland at Baltimore County, 21250, USA
    Protein Expr Purif 47:441-5. 2006
  8. ncbi request reprint Simplified gene synthesis: a one-step approach to PCR-based gene construction
    Gang Wu
    Applied Molecular Biology Laboratory, Department of Biological Sciences, University of Maryland Baltimore County, 1000 Hilltop Circle, Baltimore, MD 21250, USA
    J Biotechnol 124:496-503. 2006
  9. ncbi request reprint The effects of differential gene expression on coding sequence features: analysis by one-way ANOVA
    Gang Wu
    Department of Biological Sciences, University of Maryland at Baltimore County, Baltimore, MD 21250, USA
    Biochem Biophys Res Commun 358:1108-13. 2007
  10. ncbi request reprint Testing the potential for computational chemistry to quantify biophysical properties of the non-proteinaceous amino acids
    Yi Lu
    Department of Biological Sciences, University of Maryland, Baltimore County, Baltimore, Maryland 21250, USA
    Astrobiology 6:606-24. 2006

Detail Information

Publications13

  1. pmc SGDB: a database of synthetic genes re-designed for optimizing protein over-expression
    Gang Wu
    Department of Biological Sciences, University of Maryland at Baltimore County, 1000 Hilltop Circle, Baltimore, MD 21229, USA
    Nucleic Acids Res 35:D76-9. 2007
    ..evolvingcode.net/codon/sgdb/aligner.php, and discuss questions, findings and related information on an associated e-forum at http://www.evolvingcode.net/forum/viewforum.php?f=27...
  2. pmc On the evolution of the standard amino-acid alphabet
    Yi Lu
    Department of Biological Sciences, University of Maryland, Baltimore County, Baltimore, MD 21250, USA
    Genome Biol 7:102. 2006
    ..Fresh insights into the origin of the alphabet are now emerging from disciplines as diverse as astrobiology, biochemical engineering and bioinformatics...
  3. pmc An interactive visualization tool to explore the biophysical properties of amino acids and their contribution to substitution matrices
    Blazej Bulka
    Department of Biological Sciences, University of Maryland, Baltimore County, 1000 Hilltop Circle, Baltimore, MD 21250, USA
    BMC Bioinformatics 7:329. 2006
    ....
  4. ncbi request reprint The case for an error minimizing standard genetic code
    Stephen J Freeland
    Department of Biology, University of Maryland, Baltimore County, Catonsville, MD, USA
    Orig Life Evol Biosph 33:457-77. 2003
    ....
  5. ncbi request reprint The standard genetic code enhances adaptive evolution of proteins
    Wen Zhu
    Department of Biological Sciences, University of Maryland Baltimore County, Baltimore, MD 21250, USA
    J Theor Biol 239:63-70. 2006
    ..Noting that the standard genetic code exhibits both, we offer a new insight into the effects of the "error minimizing" code: such a code enhances the efficacy of adaptive sequence evolution...
  6. ncbi request reprint Evolution encoded
    Stephen J Freeland
    University of Maryland, Baltimore County, USA
    Sci Am 290:84-91. 2004
  7. ncbi request reprint The Synthetic Gene Designer: a flexible web platform to explore sequence manipulation for heterologous expression
    Gang Wu
    Department of Biological Sciences, University of Maryland at Baltimore County, 21250, USA
    Protein Expr Purif 47:441-5. 2006
    ..The Synthetic Gene Designer, together with on-line tutorials and the forum, is available at ...
  8. ncbi request reprint Simplified gene synthesis: a one-step approach to PCR-based gene construction
    Gang Wu
    Applied Molecular Biology Laboratory, Department of Biological Sciences, University of Maryland Baltimore County, 1000 Hilltop Circle, Baltimore, MD 21250, USA
    J Biotechnol 124:496-503. 2006
    ..Overall, the simplified gene synthesis provides an easier and more efficient approach to gene synthesis, providing a further step towards the future goal of generalized automation for this process...
  9. ncbi request reprint The effects of differential gene expression on coding sequence features: analysis by one-way ANOVA
    Gang Wu
    Department of Biological Sciences, University of Maryland at Baltimore County, Baltimore, MD 21250, USA
    Biochem Biophys Res Commun 358:1108-13. 2007
    ..This analysis also demonstrates that one-way ANOVA is a powerful and simple method to explore the influence of gene expression on CDS features...
  10. ncbi request reprint Testing the potential for computational chemistry to quantify biophysical properties of the non-proteinaceous amino acids
    Yi Lu
    Department of Biological Sciences, University of Maryland, Baltimore County, Baltimore, Maryland 21250, USA
    Astrobiology 6:606-24. 2006
    ..The results serve as a starting point for future quantitative analysis of amino acid alphabet evolution...
  11. ncbi request reprint Amino acid quantitative structure property relationship database: a web-based platform for quantitative investigations of amino acids
    Yi Lu
    Department of Biological Sciences, University of Maryland Baltimore County, Baltimore, MD 21250, USA
    Protein Eng Des Sel 20:347-51. 2007
    ....
  12. ncbi request reprint A quantitative investigation of the chemical space surrounding amino acid alphabet formation
    Yi Lu
    Department of Biological Sciences, University of Maryland, Baltimore County, 1000 Hilltop Circle, Baltimore, MD 25250, USA
    J Theor Biol 250:349-61. 2008
    ....
  13. pmc Optimal encoding rules for synthetic genes: the need for a community effort
    Gang Wu
    Mol Syst Biol 3:134. 2007