-
1
-
-
0003052774
-
Drug resistance mutations in HIV-1
-
R. T. D'Aquila, J. M. Schapiro, F. Brun-Vezinet, B. Clotet, B. Conway, et al., "Drug resistance mutations in HIV-1," Top HIV Med, vol. 10, pp. 21-25, 2002.
-
(2002)
Top HIV Med
, vol.10
, pp. 21-25
-
-
D'Aquila, R.T.1
Schapiro, J.M.2
Brun-Vezinet, F.3
Clotet, B.4
Conway, B.5
-
2
-
-
9644257332
-
Adaptive inhibitors of the HIV-1 protease
-
H. Ohtaka and E. Freire, "Adaptive inhibitors of the HIV-1 protease," Prog Biophys Mol Biol, vol. 88, pp. 193-208, 2005.
-
(2005)
Prog Biophys Mol Biol
, vol.88
, pp. 193-208
-
-
Ohtaka, H.1
Freire, E.2
-
3
-
-
0037469148
-
A major role for a set of nonactive site mutations in the development of HIV-1 protease drug resistance
-
S. Muzammil, P. Ross, and E. Freire, "A major role for a set of nonactive site mutations in the development of HIV-1 protease drug resistance," Biochemistry, vol. 42, pp. 631-638, 2003.
-
(2003)
Biochemistry
, vol.42
, pp. 631-638
-
-
Muzammil, S.1
Ross, P.2
Freire, E.3
-
4
-
-
0346881255
-
Update on HIV resistance and resistance testing
-
J. Sebastian and H. Faruki, "Update on HIV resistance and resistance testing," Med Res Rev, vol. 24, pp. 115-125, 2004.
-
(2004)
Med Res Rev
, vol.24
, pp. 115-125
-
-
Sebastian, J.1
Faruki, H.2
-
5
-
-
17044404749
-
Computer prediction of drug resistance mutations in proteins
-
Z. W. Cao, L. Y. Han, C. J. Zheng, Z. L. Ji, X. Chen, et al., "Computer prediction of drug resistance mutations in proteins," Drug Discov Today, vol. 10, pp. 521-529, 2005.
-
(2005)
Drug Discov Today
, vol.10
, pp. 521-529
-
-
Cao, Z.W.1
Han, L.Y.2
Zheng, C.J.3
Ji, Z.L.4
Chen, X.5
-
6
-
-
0042926531
-
Nonparametric methods to predict HIV drug susceptibility phenotype from genotype
-
A. G. DiRienzo, V. DeGruttola, B. Larder, and K. Hertogs, "Nonparametric methods to predict HIV drug susceptibility phenotype from genotype," Stat Med, vol. 22, pp. 2785-2798, 2003.
-
(2003)
Stat Med
, vol.22
, pp. 2785-2798
-
-
DiRienzo, A.G.1
DeGruttola, V.2
Larder, B.3
Hertogs, K.4
-
7
-
-
0036054193
-
Comparison of virtual phenotype and HIV-SEQ program (Stanford) interpretation for predicting drug resistance of HIV strains
-
E. Puchhammer-Stockl, C. Steininger, E. Geringer, and F. X. Heinz, "Comparison of virtual phenotype and HIV-SEQ program (Stanford) interpretation for predicting drug resistance of HIV strains," HIV Med, vol. 3, pp. 200-206, 2002.
-
(2002)
HIV Med
, vol.3
, pp. 200-206
-
-
Puchhammer-Stockl, E.1
Steininger, C.2
Geringer, E.3
Heinz, F.X.4
-
8
-
-
0033831385
-
Simple algorithm derived from a geno-/phenotypic database to predict HIV-1 protease inhibitor resistance
-
B. Schmidt, H. Walter, B. Moschik, C. Paatz, K. van Vaerenbergh, et al., "Simple algorithm derived from a geno-/phenotypic database to predict HIV-1 protease inhibitor resistance," AIDS, vol. 14, pp. 1731-1738, 2000.
-
(2000)
AIDS
, vol.14
, pp. 1731-1738
-
-
Schmidt, B.1
Walter, H.2
Moschik, B.3
Paatz, C.4
van Vaerenbergh, K.5
-
9
-
-
1242307487
-
Comparative evaluation of three computerized algorithms for prediction of antiretroviral susceptibility from HIV type 1 genotype
-
M. Zazzi, L. Romano, G. Venturi, R. W. Shafer, C. Reid, et al., "Comparative evaluation of three computerized algorithms for prediction of antiretroviral susceptibility from HIV type 1 genotype," J Antimicrob Chemother, vol. 53, pp. 356-360, 2004.
-
(2004)
J Antimicrob Chemother
, vol.53
, pp. 356-360
-
-
Zazzi, M.1
Romano, L.2
Venturi, G.3
Shafer, R.W.4
Reid, C.5
-
10
-
-
0037062513
-
Diversity and complexity of HIV-1 drug resistance: A bioinformatics approach to predicting phenotype from genotype
-
N. Beerenwinkel, B. Schmidt, H. Walter, R. Kaiser, T. Lengauer, et al., "Diversity and complexity of HIV-1 drug resistance: a bioinformatics approach to predicting phenotype from genotype," Proc Natl Acad Sci U S A, vol. 99, pp. 8271-8276, 2002.
-
(2002)
Proc Natl Acad Sci U S A
, vol.99
, pp. 8271-8276
-
-
Beerenwinkel, N.1
Schmidt, B.2
Walter, H.3
Kaiser, R.4
Lengauer, T.5
-
11
-
-
0043092351
-
Geno2pheno: Estimating phenotypic drug resistance from HIV-1 genotypes
-
N. Beerenwinkel, M. Daumer, M. Oette, K. Korn, D. Hoffmann, et al., "Geno2pheno: Estimating phenotypic drug resistance from HIV-1 genotypes," Nucleic Acids Res, vol. 31, pp. 3850-3855, 2003.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3850-3855
-
-
Beerenwinkel, N.1
Daumer, M.2
Oette, M.3
Korn, K.4
Hoffmann, D.5
-
12
-
-
0037248697
-
Predicting HIV drug resistance with neural networks
-
S. Draghici and R. B. Potter, "Predicting HIV drug resistance with neural networks," Bioinformatics, vol. 19, pp. 98-107, 2003.
-
(2003)
Bioinformatics
, vol.19
, pp. 98-107
-
-
Draghici, S.1
Potter, R.B.2
-
13
-
-
0141724633
-
Enhanced prediction of lopinavir resistance from genotype by use of artificial neural networks
-
D. Wang and B. Larder, "Enhanced prediction of lopinavir resistance from genotype by use of artificial neural networks," J Infect Dis, vol. 188, pp. 653-660, 2003.
-
(2003)
J Infect Dis
, vol.188
, pp. 653-660
-
-
Wang, D.1
Larder, B.2
-
14
-
-
0034851803
-
Can an optimization/scoring procedure in ligand-protein docking be employed to probe drug-resistant mutations in proteins?
-
Y. Z. Chen, X. L. Gu, and Z. W. Cao, "Can an optimization/scoring procedure in ligand-protein docking be employed to probe drug-resistant mutations in proteins?," J Mol Graph Model, vol. 19, pp. 560-570, 2001.
-
(2001)
J Mol Graph Model
, vol.19
, pp. 560-570
-
-
Chen, Y.Z.1
Gu, X.L.2
Cao, Z.W.3
-
15
-
-
0036888766
-
Computational studies of the resistance patterns of mutant HIV-1 aspartic proteases towards ABT-538 (ritonavir) and design of new derivatives
-
A. C. Nair, I. Bonin, A. Tossi, W. J. Wels, and S. Miertus, "Computational studies of the resistance patterns of mutant HIV-1 aspartic proteases towards ABT-538 (ritonavir) and design of new derivatives," J Mol Graph Model, vol. 21, pp. 171-179, 2002.
-
(2002)
J Mol Graph Model
, vol.21
, pp. 171-179
-
-
Nair, A.C.1
Bonin, I.2
Tossi, A.3
Wels, W.J.4
Miertus, S.5
-
16
-
-
0041341885
-
Structure-based phenotyping predicts HIV-1 protease inhibitor resistance
-
M. D. Shenderovich, R. M. Kagan, P. N. Heseltine, and K. Ramnarayan, "Structure-based phenotyping predicts HIV-1 protease inhibitor resistance," Protein Sci, vol. 12, pp. 1706-1718, 2003.
-
(2003)
Protein Sci
, vol.12
, pp. 1706-1718
-
-
Shenderovich, M.D.1
Kagan, R.M.2
Heseltine, P.N.3
Ramnarayan, K.4
-
17
-
-
0035910029
-
Computational study of protein specificity: The molecular basis of HIV-1 protease drug resistance
-
W. Wang and P. A. Kollman, "Computational study of protein specificity: the molecular basis of HIV-1 protease drug resistance," Proc Natl Acad Sci U S A, vol. 98, pp. 14937-14942, 2001.
-
(2001)
Proc Natl Acad Sci U S A
, vol.98
, pp. 14937-14942
-
-
Wang, W.1
Kollman, P.A.2
-
18
-
-
0033001019
-
Molecular mechanics analysis of drug-resistant mutants of HIV protease
-
I. T. Weber and R. W. Harrison, "Molecular mechanics analysis of drug-resistant mutants of HIV protease," Protein Eng, vol. 12, pp. 469-474, 1999.
-
(1999)
Protein Eng
, vol.12
, pp. 469-474
-
-
Weber, I.T.1
Harrison, R.W.2
-
19
-
-
0036643507
-
Evolutionary analysis of HIV-1 protease inhibitors: Methods for design of inhibitors that evade resistance
-
D. Stoffler, M. F. Sanner, G. M. Morris, A. J. Olson, and D. S. Goodsell, "Evolutionary analysis of HIV-1 protease inhibitors: Methods for design of inhibitors that evade resistance," Proteins, vol. 48, pp. 63-74, 2002.
-
(2002)
Proteins
, vol.48
, pp. 63-74
-
-
Stoffler, D.1
Sanner, M.F.2
Morris, G.M.3
Olson, A.J.4
Goodsell, D.S.5
-
20
-
-
10944234802
-
Molecular dynamics simulations of 14 HIV protease mutants in complexes with indinavir
-
X. Chen, I. T. Weber, and R. W. Harrison, "Molecular dynamics simulations of 14 HIV protease mutants in complexes with indinavir," J Mol Model, vol. 10, pp. 373-381, 2004.
-
(2004)
J Mol Model
, vol.10
, pp. 373-381
-
-
Chen, X.1
Weber, I.T.2
Harrison, R.W.3
-
21
-
-
0033954256
-
The protein data bank
-
H. M. Berman, J. Westbrook, Z. Feng, G. Gilliland, T. N. Bhat, et al., "The protein data bank," Nucleic Acids Res, vol. 28, pp. 235-242, 2000.
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 235-242
-
-
Berman, H.M.1
Westbrook, J.2
Feng, Z.3
Gilliland, G.4
Bhat, T.N.5
-
22
-
-
27944432693
-
Compositional preferences in quadruplets of nearest neighbor residues in protein structures: Statistical geometry analysis
-
I. I. Vaisman, A. Tropsha, and W. Zheng, "Compositional preferences in quadruplets of nearest neighbor residues in protein structures: statistical geometry analysis," Proceedings of the IEEE Symposia on Intelligence and Systems, pp. 163-168, 1998.
-
(1998)
Proceedings of the IEEE Symposia on Intelligence and Systems
, pp. 163-168
-
-
Vaisman, I.I.1
Tropsha, A.2
Zheng, W.3
-
23
-
-
0030054951
-
Delaunay tessellation of proteins: Four body nearest-neighbor propensities of amino acid residues
-
R. K. Singh, A. Tropsha, and I. I. Vaisman, "Delaunay tessellation of proteins: four body nearest-neighbor propensities of amino acid residues," J Comput Biol, vol. 3, pp. 213-221, 1996.
-
(1996)
J Comput Biol
, vol.3
, pp. 213-221
-
-
Singh, R.K.1
Tropsha, A.2
Vaisman, I.I.3
-
24
-
-
0030381077
-
The quickhull algorithm for convex hulls
-
C. B. Barber, D. P. Dobkin, and H. T. Huhdanpaa, "The quickhull algorithm for convex hulls," ACM Transactions on Mathematical Software, vol. 22, pp. 469-483, 1996.
-
(1996)
ACM Transactions on Mathematical Software
, vol.22
, pp. 469-483
-
-
Barber, C.B.1
Dobkin, D.P.2
Huhdanpaa, H.T.3
-
25
-
-
0037691515
-
Comprehensive mutagenesis of HIV-1 protease: A computational geometry approach
-
M. Masso and I. I. Vaisman, "Comprehensive mutagenesis of HIV-1 protease: a computational geometry approach," Biochem Biophys Res Commun, vol. 305, pp. 322-326, 2003.
-
(2003)
Biochem Biophys Res Commun
, vol.305
, pp. 322-326
-
-
Masso, M.1
Vaisman, I.I.2
-
26
-
-
33744801422
-
Computational mutagenesis studies of protein structure-function correlations
-
M. Masso, Z. Lu, and I. I. Vaisman, "Computational mutagenesis studies of protein structure-function correlations," Proteins, vol. 64, pp. 234-245, 2006.
-
(2006)
Proteins
, vol.64
, pp. 234-245
-
-
Masso, M.1
Lu, Z.2
Vaisman, I.I.3
-
27
-
-
20244373125
-
X-ray analysis of HIV-1 proteinase at 2.7 A resolution confirms structural homology among retroviral enzymes
-
R. Lapatto, T. Blundell, A. Hemmings, J. Overington, A. Wilderspin, et al., "X-ray analysis of HIV-1 proteinase at 2.7 A resolution confirms structural homology among retroviral enzymes," Nature, vol. 342, pp. 299-302, 1989.
-
(1989)
Nature
, vol.342
, pp. 299-302
-
-
Lapatto, R.1
Blundell, T.2
Hemmings, A.3
Overington, J.4
Wilderspin, A.5
-
28
-
-
3342913702
-
Distribution of human immunodeficiency virus type 1 protease and reverse transcriptase mutation patterns in 4,183 persons undergoing genotypic resistance testing
-
S. Y. Rhee, T. Liu, J. Ravela, M. J. Gonzales, and R. W. Shafer, "Distribution of human immunodeficiency virus type 1 protease and reverse transcriptase mutation patterns in 4,183 persons undergoing genotypic resistance testing," Antimicrob Agents Chemother, vol. 48, pp. 3122-3126, 2004.
-
(2004)
Antimicrob Agents Chemother
, vol.48
, pp. 3122-3126
-
-
Rhee, S.Y.1
Liu, T.2
Ravela, J.3
Gonzales, M.J.4
Shafer, R.W.5
-
29
-
-
0034019566
-
A novel phenotypic drug susceptibility assay for human immunodeficiency virus type 1
-
C. J. Petropoulos, N. T. Parkin, K. L. Limoli, Y. S. Lie, T. Wrin, et al., "A novel phenotypic drug susceptibility assay for human immunodeficiency virus type 1," Antimicrob Agents Chemother, vol. 44, pp. 920-928, 2000.
-
(2000)
Antimicrob Agents Chemother
, vol.44
, pp. 920-928
-
-
Petropoulos, C.J.1
Parkin, N.T.2
Limoli, K.L.3
Lie, Y.S.4
Wrin, T.5
-
30
-
-
0036768328
-
Analysis of the virological response with respect to baseline viral phenotype and genotype in protease inhibitor-experienced HIV-1-infected patients receiving lopinavir/ritonavir therapy
-
D. J. Kempf, J. D. Isaacson, M. S. King, S. C. Brun, J. Sylte, et al., "Analysis of the virological response with respect to baseline viral phenotype and genotype in protease inhibitor-experienced HIV-1-infected patients receiving lopinavir/ritonavir therapy," Antivir Ther, vol. 7, pp. 165-174, 2002.
-
(2002)
Antivir Ther
, vol.7
, pp. 165-174
-
-
Kempf, D.J.1
Isaacson, J.D.2
King, M.S.3
Brun, S.C.4
Sylte, J.5
-
31
-
-
0942290559
-
Natural variation of drug susceptibility in wild-type human immunodeficiency virus type 1
-
N. T. Parkin, N. S. Hellmann, J. M. Whitcomb, L. Kiss, C. Chappey, et al., "Natural variation of drug susceptibility in wild-type human immunodeficiency virus type 1," Antimicrob Agents Chemother, vol. 48, pp. 437-443, 2004.
-
(2004)
Antimicrob Agents Chemother
, vol.48
, pp. 437-443
-
-
Parkin, N.T.1
Hellmann, N.S.2
Whitcomb, J.M.3
Kiss, L.4
Chappey, C.5
-
32
-
-
0034033723
-
Phenotypic resistance to protease inhibitors in patients who fail on highly active antiretroviral therapy predicts the outcome at 48 weeks of a five-drug combination including ritonavir, saquinavir and efavirenz
-
C. Piketty, E. Race, P. Castiel, L. Belec, G. Peytavin, et al., "Phenotypic resistance to protease inhibitors in patients who fail on highly active antiretroviral therapy predicts the outcome at 48 weeks of a five-drug combination including ritonavir, saquinavir and efavirenz," AIDS, vol. 14, pp. 626-628, 2000.
-
(2000)
AIDS
, vol.14
, pp. 626-628
-
-
Piketty, C.1
Race, E.2
Castiel, P.3
Belec, L.4
Peytavin, G.5
-
33
-
-
7244250182
-
Data mining in bioinformatics using Weka
-
E. Frank, M. Hall, L. Trigg, G. Holmes, and I. H. Witten, "Data mining in bioinformatics using Weka," Bioinformatics, vol. 20, pp. 2479-2481, 2004.
-
(2004)
Bioinformatics
, vol.20
, pp. 2479-2481
-
-
Frank, E.1
Hall, M.2
Trigg, L.3
Holmes, G.4
Witten, I.H.5
-
34
-
-
0004204162
-
-
2nd ed. San Francisco: Morgan Kaufmann, Elsevier
-
I. H. Witten and E. Frank, Data Mining, 2nd ed. San Francisco: Morgan Kaufmann, Elsevier, 2005.
-
(2005)
Data Mining
-
-
Witten, I.H.1
Frank, E.2
-
35
-
-
47649100846
-
-
T. Fawcett, ROC graphs: notes and practical considerations for researchers, in HPL-2003-4. Palo Alto: Hewlett-Packard Labs, 2003.
-
T. Fawcett, "ROC graphs: notes and practical considerations for researchers," in HPL-2003-4. Palo Alto: Hewlett-Packard Labs, 2003.
-
-
-
-
36
-
-
0020083498
-
The meaning and use of the area under a receiver operating characteristic (ROC) curve
-
J. A. Hanley and B. J. McNeil, "The meaning and use of the area under a receiver operating characteristic (ROC) curve," Radiology, vol. 143, pp. 29-36, 1982.
-
(1982)
Radiology
, vol.143
, pp. 29-36
-
-
Hanley, J.A.1
McNeil, B.J.2
-
37
-
-
0041992571
-
Well-trained PETs: Improving probability estimation trees,
-
IS-00-04. New York: Stern School of Business, New York University
-
F. Provost and P. Domingos, "Well-trained PETs: improving probability estimation trees," in CeDER Technical Report IS-00-04. New York: Stern School of Business, New York University, 2001.
-
(2001)
in CeDER Technical Report
-
-
Provost, F.1
Domingos, P.2
-
38
-
-
0003562954
-
A simple generalization of the area under the ROC curve to multiple class classification problems
-
D. J. Hand and R. J. Till, "A simple generalization of the area under the ROC curve to multiple class classification problems," Machine Learning, vol. 45, pp. 171-186, 2001.
-
(2001)
Machine Learning
, vol.45
, pp. 171-186
-
-
Hand, D.J.1
Till, R.J.2
|