Robert W. Shafer

13 papers Misc 1Journal 12
YearRankTypeTitle / Venue / Authors
2017 J jnl
NucAmino: a nucleotide to amino acid alignment optimized for virus gene sequences.
BMC Bioinform.
Philip L. Tzou, Xiaoqiu Huang, Robert W. Shafer
2011 J jnl
A multifaceted analysis of HIV-1 protease multidrug resistance phenotypes.
BMC Bioinform.
Kathleen M. Doherty, Priyanka Nakka, Bracken M. King, Soo-Yon Rhee, Susan P. Holmes, Robert W. Shafer, Mala L. Radhakrishnan
2010 J jnl
A classification model for G-to-A hypermutation in hepatitis B virus ultra-deep pyrosequencing reads.
Bioinform.
Elizabeth C. Reuman, Severine Margeridon-Thermet, Harrison B. Caudill, Tommy F. Liu, Katyna Borroto-Esoda, Evguenia S. Svarovskaia, Susan P. Holmes, Robert W. Shafer
2010 J jnl
Estimating the individualized HIV-1 genetic barrier to resistance using a nelfinavir fitness landscape.
BMC Bioinform.
Kristof Theys, Koen Deforche, Gertjan Beheydt, Yves Moreau, Kristel Van Laethem, Philippe Lemey, Ricardo Camacho, Soo-Yon Rhee, Robert W. Shafer, Eric Van Wijngaerden, Anne-Mieke Vandamme
2009 J jnl
The calibrated population resistance tool: standardized genotypic estimation of transmitted HIV-1 drug resistance.
Bioinform.
Robert J. Gifford, Tommy F. Liu, Soo-Yon Rhee, Mark Kiuchi, Stéphane Hué, Deenan Pillay, Robert W. Shafer
2008 J jnl
Viral Population Estimation Using Pyrosequencing.
PLoS Comput. Biol.
Nicholas Eriksson, Lior Pachter, Yumi Mitsuya, Soo-Yon Rhee, Chunlin Wang, Baback Gharizadeh, Mostafa Ronaghi, Robert W. Shafer, Niko Beerenwinkel
2007 J jnl
HIV-1 Subtype B Protease and Reverse Transcriptase Amino Acid Covariation.
PLoS Comput. Biol.
Soo-Yon Rhee, Tommy F. Liu, Susan P. Holmes, Robert W. Shafer
2006 Misc conf
Prediction of HIV Mutation Changes based on Treatment History.
AMIA
Ray S. Lin, Soo-Yon Rhee, Robert W. Shafer, Amar K. Das
2003 J jnl
Human immunodeficiency virus reverse transcriptase and protease sequence database.
Nucleic Acids Res.
Soo-Yon Rhee, Matthew J. Gonzales, Rami Kantor, Bradley J. Betts, Jaideep Ravela, Robert W. Shafer
2002 J jnl
Synonymous-non-synonymous mutation rates between sequences containing ambiguous nucleotides (Syn-SCAN).
Bioinform.
Matthew J. Gonzales, Jonathan M. Dugan, Robert W. Shafer
2001 J jnl
Human Immunodeficiency Virus Reverse Transcriptase and Protease Sequence Database: an expanded data model integrating natural language text and sequence analysis programs.
Nucleic Acids Res.
Rami Kantor, Rhoderick Machekano, Matthew J. Gonzales, Kathryn Dupnik, Jonathan M. Schapiro, Robert W. Shafer
2000 J jnl
Human Immunodeficiency Virus Reverse Transcriptase and Protease Sequence Database.
Nucleic Acids Res.
Robert W. Shafer, Duane R. Jung, Bradley J. Betts, Yinong Xi, Matthew J. Gonzales
1999 J jnl
Human Immunodeficiency Virus Reverse Transcriptase and Protease Sequence Database.
Nucleic Acids Res.
Robert W. Shafer, Derek Stevenson, Bryan Chan