SNAP: predict effect of non-synonymous polymorphisms on functionYana Bromberg
Department of Biochemistry and Molecular Biophysics, Columbia University, 630 West 168th St, New York, NY 10032, USA
Nucleic Acids Res 35:3823-35. 2007
..This measure will allow users to focus on the most accurate predictions and/or the most severe effects. Available at http://www.rostlab.org/services/SNAP...
- SNAP predicts effect of mutations on protein function
Yana Bromberg
Department of Biochemistry and Molecular Biophysics, Columbia University, New York, NY 10032, USA
Bioinformatics 24:2397-8. 2008
..Each prediction is associated with a reliability index that correlates with accuracy and thereby enables experimentalists to zoom into the most promising predictions...
New in protein structure and function annotation: hotspots, single nucleotide polymorphisms and the 'Deep Web'Yana Bromberg
Department of Biochemistry and Molecular Biophysics, Columbia University, New York, NY 10032, USA
Curr Opin Drug Discov Devel 12:408-19. 2009
..The availability of this direct connection, and the resulting access to a wealth of data, may impact drug discovery and development more than any existing method that contributes to protein annotation...
- In silico mutagenesis: a case study of the melanocortin 4 receptor
Yana Bromberg
Department of Biochemistry and Molecular Biophysics, Columbia University, New York, New York, USA
FASEB J 23:3059-69. 2009
..other GPCRs, such as hMC1R...
- Correlating protein function and stability through the analysis of single amino acid substitutions
Yana Bromberg
Department of Biochemistry and Molecular Biophysics, Columbia University, New York, NY 10032, USA
BMC Bioinformatics 10:S8. 2009
..However, experimental 3D structures are available for only 1% of all known proteins; the magnitude of stability change caused by a given mutation is more widely available...
- Comprehensive in silico mutagenesis highlights functionally important residues in proteins
Yana Bromberg
Department of Biochemistry Molecular Biophysics, Columbia University, 630 West 168th St, New York, NY 10032, USA
Bioinformatics 24:i207-12. 2008
..In vitro mutagenesis is cumbersome and costly: probing all residues in a protein is typically as impossible as substituting by all non-native amino acids. In contrast, such exhaustive mutagenesis is feasible in silico...
