-
1
-
-
31944435052
-
AIDS epidemic update: December 2005
-
UNAIDS. UNAIDS web site [online]
-
UNAIDS. AIDS epidemic update: December 2005. UNAIDS web site [online], (2005).
-
(2005)
-
-
-
2
-
-
68149090731
-
-
in (ed. Geretti, A. M.) (Mediscript, London)
-
Sing, T. & Däumer, M. in Antiretroviral Resistance in Clinical Practice (ed. Geretti, A. M.) 43-56 (Mediscript, London, 2005).
-
(2005)
Antiretroviral Resistance in Clinical Practice
, pp. 43-56
-
-
Sing, T.1
Däumer, M.2
-
3
-
-
0003684449
-
-
(Springer, New York)
-
Hastie, T., Tibshirani, R. & Friedman, J. The Elements of Statistical Learning (Springer, New York, 2001).
-
(2001)
The Elements of Statistical Learning
-
-
Hastie, T.1
Tibshirani, R.2
Friedman, J.3
-
4
-
-
24344496912
-
Emerging drug targets for antiretroviral therapy
-
Reeves, J. D. & Piefer, A. J. Emerging drug targets for antiretroviral therapy. Drugs 65, 1747-1766 (2005).
-
(2005)
Drugs
, vol.65
, pp. 1747-1766
-
-
Reeves, J.D.1
Piefer, A.J.2
-
5
-
-
33748848371
-
Application of multiple linear regression modelling to the quantitative prediction of HIV-1 drug susceptibility phenotype from viral genotype
-
Vermeiren, H. et al. Application of multiple linear regression modelling to the quantitative prediction of HIV-1 drug susceptibility phenotype from viral genotype. Antivir. Ther. 9, S122 (2004).
-
(2004)
Antivir. Ther.
, vol.9
-
-
Vermeiren, H.1
-
6
-
-
3042812835
-
Simple linear model provides highly accurate genotypic predictions of HIV-1 drug resistance
-
Wang, K., Jenwitheesuk, E., Samudrala, R. & Mittler, J. E. Simple linear model provides highly accurate genotypic predictions of HIV-1 drug resistance. Antivir. Ther. 9, 343-352 (2004).
-
(2004)
Antivir. Ther.
, vol.9
, pp. 343-352
-
-
Wang, K.1
Jenwitheesuk, E.2
Samudrala, R.3
Mittler, J.E.4
-
7
-
-
0033914844
-
Methods for investigation of the relationship between drug-susceptibility phenotype and human immunodeficiency virus type 1 genotype with applications to AIDS clinical trials group 333
-
Sevin, A. D. et al. Methods for investigation of the relationship between drug-susceptibility phenotype and human immunodeficiency virus type 1 genotype with applications to AIDS clinical trials group 333. J. Infect. Dis. 182, 59-67 (2000).
-
(2000)
J. Infect. Dis.
, vol.182
, pp. 59-67
-
-
Sevin, A.D.1
-
8
-
-
0036189326
-
Characterizing the relationship between HIV-1 genotype and phenotype: Prediction-based classification
-
Foulkes, A. S. & De Gruttola, V. Characterizing the relationship between HIV-1 genotype and phenotype: Prediction-based classification. Biometrics 58, 145-156 (2002).
-
(2002)
Biometrics
, vol.58
, pp. 145-156
-
-
Foulkes, A.S.1
De Gruttola, V.2
-
9
-
-
0041565368
-
Characterizing classes of antiretroviral drugs by genotype
-
Foulkes, A. S. & De Gruttola, V. Characterizing classes of antiretroviral drugs by genotype. Stat. Med. 22, 2637-2655 (2003).
-
(2003)
Stat. Med.
, vol.22
, pp. 2637-2655
-
-
Foulkes, A.S.1
De Gruttola, V.2
-
10
-
-
0141724633
-
Enhanced prediction of lopinavir resistance from genotype by use of artificial neural networks
-
Wang, D. & Larder, B. Enhanced prediction of lopinavir resistance from genotype by use of artificial neural networks. J. Infect. Dis. 188, 653-660 (2003).
-
(2003)
J. Infect. Dis.
, vol.188
, pp. 653-660
-
-
Wang, D.1
Larder, B.2
-
11
-
-
0036366013
-
A SOFM approach to predicting HIV drug resistance
-
Potter, R. B. & Draghici, S. A SOFM approach to predicting HIV drug resistance. Pac. Symp. Biocomput. 77-87 (2002).
-
(2002)
Pac. Symp. Biocomput.
, pp. 77-87
-
-
Potter, R.B.1
Draghici, S.2
-
12
-
-
0037062513
-
Diversity and complexity of HIV-1 drug resistance: A bioinformatics approach to predicting phenotype from genotype
-
Beerenwinkel, N. et al. Diversity and complexity of HIV-1 drug resistance: A bioinformatics approach to predicting phenotype from genotype. Proc. Natl Acad. Sci. USA 99, 8271-8276 (2002).
-
(2002)
Proc. Natl Acad. Sci. USA
, vol.99
, pp. 8271-8276
-
-
Beerenwinkel, N.1
-
13
-
-
0043092351
-
Geno2pheno: Estimating phenotypic drug resistance from HIV-1 genotypes
-
Beerenwinkel, N. et al. Geno2pheno: Estimating phenotypic drug resistance from HIV-1 genotypes. Nucleic Acids Res. 31, 3850-3855 (2003).
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 3850-3855
-
-
Beerenwinkel, N.1
-
14
-
-
0002508891
-
Predicting HIV-1 phenotypic resistance from genotype using a large phenotype-genotype relational database
-
Larder, B. et al. Predicting HIV-1 phenotypic resistance from genotype using a large phenotype-genotype relational database. Antivir. Ther. 4, S59 (1999).
-
(1999)
Antivir. Ther.
, vol.4
-
-
Larder, B.1
-
15
-
-
0042926531
-
Non-parametric methods to predict HIV drug susceptibility phenotype from genotype
-
DiRienzo, A. G., De Gruttola, V., Larder, B. & Hertogs, K. Non-parametric methods to predict HIV drug susceptibility phenotype from genotype. Stat. Med. 22, 2785-2798 (2003).
-
(2003)
Stat. Med.
, vol.22
, pp. 2785-2798
-
-
DiRienzo, A.G.1
De Gruttola, V.2
Larder, B.3
Hertogs, K.4
-
16
-
-
33644855246
-
Accurate prediction of HIV-1 drug response from the reverse transcriptase and protease amino acid sequences using sparse models created by convex optimization
-
Rabinowitz, M. et al. Accurate prediction of HIV-1 drug response from the reverse transcriptase and protease amino acid sequences using sparse models created by convex optimization. Bioinformatics 22, 541-549 (2006).
-
(2006)
Bioinformatics
, vol.22
, pp. 541-549
-
-
Rabinowitz, M.1
-
17
-
-
33748847173
-
The VirtualPhenotype analysis of an HIV-1 genotype provides a more accurate prediction of drug susceptibility than a single phenotype measurement
-
Van Houtte, M. et al. The VirtualPhenotype analysis of an HIV-1 genotype provides a more accurate prediction of drug susceptibility than a single phenotype measurement. Proc. 13th Int. Symp. HIV Emerging Infect. Dis. (2004).
-
(2004)
Proc. 13th Int. Symp. HIV Emerging Infect. Dis.
-
-
Van Houtte, M.1
-
18
-
-
4444356080
-
Improved accuracy of HIV-1 genotypic susceptibility interpretation using a consensus approach
-
Jenwitheesuk, E., Wang, K., Mittler, J. E. & Samudrala, R. Improved accuracy of HIV-1 genotypic susceptibility interpretation using a consensus approach. AIDS 18, 1858-1859 (2004).
-
(2004)
AIDS
, vol.18
, pp. 1858-1859
-
-
Jenwitheesuk, E.1
Wang, K.2
Mittler, J.E.3
Samudrala, R.4
-
19
-
-
9444299113
-
HIV-1 genotypic drug-resistance interpretation algorithms need to include hypersusceptibility-associated mutations
-
Wang, K., Samudrala, R. & Mittler, J. E. HIV-1 genotypic drug-resistance interpretation algorithms need to include hypersusceptibility-associated mutations. J. Infect. Dis. 190, 2055-2056 (2004).
-
(2004)
J. Infect. Dis.
, vol.190
, pp. 2055-2056
-
-
Wang, K.1
Samudrala, R.2
Mittler, J.E.3
-
20
-
-
16244403666
-
Prediction of HIV-1 protease inhibitor resistance using a protein-inhibitor flexible docking approach
-
Jenwitheesuk, E. & Samudrala, R. Prediction of HIV-1 protease inhibitor resistance using a protein-inhibitor flexible docking approach. Antivir. Ther. 10, 157-166 (2005).
-
(2005)
Antivir. Ther.
, vol.10
, pp. 157-166
-
-
Jenwitheesuk, E.1
Samudrala, R.2
-
21
-
-
0037248697
-
Predicting HIV drug resistance with neural networks
-
Draghici, S. & Potter, R. B. Predicting HIV drug resistance with neural networks. Bioinformatics 19, 98-107 (2003).
-
(2003)
Bioinformatics
, vol.19
, pp. 98-107
-
-
Draghici, S.1
Potter, R.B.2
-
22
-
-
0041341885
-
Structure-based phenotyping predicts HIV-1 protease inhibitor resistance
-
Shenderovich, M. D., Kagan, R. M., Heseltine, P. N. & Ramnarayan, K. Structure-based phenotyping predicts HIV-1 protease inhibitor resistance. Protein Sci. 12, 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
-
23
-
-
3042668215
-
Improved prediction of HIV-1 protease-inhibitor binding energies by molecular dynamics simulations
-
Article 2
-
Jenwitheesuk, E. & Samudrala, R. Improved prediction of HIV-1 protease-inhibitor binding energies by molecular dynamics simulations. BMC Struct. Biol. 3, Article 2 (2003).
-
(2003)
BMC Struct. Biol.
, vol.3
-
-
Jenwitheesuk, E.1
Samudrala, R.2
-
24
-
-
0037115020
-
Structural pharmacogenomics, drug resistance and the design of anti-infective superdrugs
-
Maggio, E. T., Shenderovich, M., Kagan, R., Goddette, D. & Ramnarayan, K. Structural pharmacogenomics, drug resistance and the design of anti-infective superdrugs. Drug Discov. Today 7, 1214-1220 (2002).
-
(2002)
Drug Discov. Today
, vol.7
, pp. 1214-1220
-
-
Maggio, E.T.1
Shenderovich, M.2
Kagan, R.3
Goddette, D.4
Ramnarayan, K.5
-
25
-
-
17044404749
-
Computer prediction of drug resistance mutations in proteins
-
Cao, Z. W. et al. Computer prediction of drug resistance mutations in proteins. Drug Discov. Today 10, 521-529 (2005).
-
(2005)
Drug Discov. Today
, vol.10
, pp. 521-529
-
-
Cao, Z.W.1
-
26
-
-
16244398637
-
PIRSpred: A web server for reliable HIV-1 protein-inhibitor resistance/susceptibility prediction
-
Jenwitheesuk, E., Wang, K., Mittler, J. E. & Samudrala, R. PIRSpred: A web server for reliable HIV-1 protein-inhibitor resistance/ susceptibility prediction. Trends Microbiol. 13, 150-151 (2005).
-
(2005)
Trends Microbiol.
, vol.13
, pp. 150-151
-
-
Jenwitheesuk, E.1
Wang, K.2
Mittler, J.E.3
Samudrala, R.4
-
27
-
-
0035521550
-
Geno2pheno: Interpreting genotypic HIV drug resistance tests
-
Beerenwinkel, N. et al. Geno2pheno: Interpreting genotypic HIV drug resistance tests. IEEE Intelligent Syst. 16, 35-41 (2001).
-
(2001)
IEEE Intelligent Syst.
, vol.16
, pp. 35-41
-
-
Beerenwinkel, N.1
-
28
-
-
4344701042
-
Clinically validated genotype analysis: Guiding principles and statistical concerns
-
Brun-Vezinet, F. et al., Clinically validated genotype analysis: Guiding principles and statistical concerns. Antivir. Ther. 9, 465-478 (2004).
-
(2004)
Antivir. Ther.
, vol.9
, pp. 465-478
-
-
Brun-Vezinet, F.1
-
29
-
-
23044451326
-
Comparison of tests and procedures to build clinically relevant genotypic scores: Application to the Jaguar study
-
Flandre, P. et al. Comparison of tests and procedures to build clinically relevant genotypic scores: Application to the Jaguar study. Antivir. Ther. 10, 479-487 (2005).
-
(2005)
Antivir. Ther.
, vol.10
, pp. 479-487
-
-
Flandre, P.1
-
30
-
-
33748876627
-
-
in (Bash Medical Publishing, Paris)
-
Clavel, F., Soriano, V. & Zolopa, A. R. in HIV infection 101-107 (Bash Medical Publishing, Paris, 2004).
-
(2004)
HIV Infection
, pp. 101-107
-
-
Clavel, F.1
Soriano, V.2
Zolopa, A.R.3
-
31
-
-
4344623482
-
Weighted phenotypic susceptibility scores are predictive of the HIV-1 RNA response in protease inhibitor-experienced HIV-1-infected subjects
-
Swanstrom, R. et al. Weighted phenotypic susceptibility scores are predictive of the HIV-1 RNA response in protease inhibitor-experienced HIV-1-infected subjects. J. Infect. Dis. 190, 886-893 (2004).
-
(2004)
J. Infect. Dis.
, vol.190
, pp. 886-893
-
-
Swanstrom, R.1
-
32
-
-
0344808232
-
Methods for optimizing antiviral combination therapies
-
Beerenwinkel, N. et al. Methods for optimizing antiviral combination therapies. Bioinformatics 19 (Suppl. 1), i16-i25 (2003).
-
(2003)
Bioinformatics
, vol.19
, Issue.SUPPL. 1
-
-
Beerenwinkel, N.1
-
33
-
-
29144446349
-
Estimation of phenotypic clinical cutoffs for VirtualPhenotype through meta analyses of clinical trial and cohort data
-
Bacheler, L. et al. Estimation of phenotypic clinical cutoffs for VirtualPhenotype through meta analyses of clinical trial and cohort data. Antivir. Ther. 9, S154 (2004).
-
(2004)
Antivir. Ther.
, vol.9
-
-
Bacheler, L.1
-
35
-
-
0036901603
-
Mathematical models of HIV pathogenesis and treatment
-
Wodarz, D. & Nowak, M. A. Mathematical models of HIV pathogenesis and treatment. Bioessays 24, 1178-1187 (2002).
-
(2002)
Bioessays
, vol.24
, pp. 1178-1187
-
-
Wodarz, D.1
Nowak, M.A.2
-
36
-
-
33745792813
-
Pharmacokinetic-pharmacodynamic modelling: History and perspectives
-
Csajka, C. & Verotta, D. Pharmacokinetic-pharmacodynamic modelling: history and perspectives. J. Pharmacokinet. Pharmacodyn. 33, 227-279 (2006).
-
(2006)
J. Pharmacokinet. Pharmacodyn.
, vol.33
, pp. 227-279
-
-
Csajka, C.1
Verotta, D.2
-
37
-
-
33748878435
-
'Common law' applied to treatment decisions for drug resistant HIV
-
Prosperi, M. et al. 'Common law' applied to treatment decisions for drug resistant HIV. Antivir. Ther. 10, S62 (2005).
-
(2005)
Antivir. Ther.
, vol.10
-
-
Prosperi, M.1
-
38
-
-
0344593433
-
The relation between baseline HIV drug resistance and response to antiretroviral therapy: Re-analysis of retrospective and prospective studies using a standardized data analysis plan
-
DeGruttola, V. et al. The relation between baseline HIV drug resistance and response to antiretroviral therapy: Re-analysis of retrospective and prospective studies using a standardized data analysis plan. Antivir. Ther. 5, 41-48 (2000).
-
(2000)
Antivir. Ther.
, vol.5
, pp. 41-48
-
-
DeGruttola, V.1
-
39
-
-
33748862453
-
HAART outcome prediction using statistical learning methods
-
Savenkov, I. et al. HAART outcome prediction using statistical learning methods. Antivir. Ther. 10, S60 (2005).
-
(2005)
Antivir. Ther.
, vol.10
-
-
Savenkov, I.1
-
40
-
-
0042044292
-
Combinatorial optimization in rapidly mutating drug-resistant viruses
-
Lathrop, R. & Pazzani, M. Combinatorial optimization in rapidly mutating drug-resistant viruses. J. Comb. Optim. 3, 301-320 (1999).
-
(1999)
J. Comb. Optim.
, vol.3
, pp. 301-320
-
-
Lathrop, R.1
Pazzani, M.2
-
41
-
-
18944399666
-
Estimating HIV evolutionary pathways and the genetic barrier to drug resistance
-
Beerenwinkel, N. et al. Estimating HIV evolutionary pathways and the genetic barrier to drug resistance. J. Infect. Dis. 191, 1953-1960 (2005).
-
(2005)
J. Infect. Dis.
, vol.191
, pp. 1953-1960
-
-
Beerenwinkel, N.1
-
42
-
-
1142277419
-
Characterizing the progression of viral mutations over time
-
Foulkes, A. S. & De Gruttola, V. Characterizing the progression of viral mutations over time. J. Am. Stat. Assoc. 98, 859-867 (2003).
-
(2003)
J. Am. Stat. Assoc.
, vol.98
, pp. 859-867
-
-
Foulkes, A.S.1
De Gruttola, V.2
-
43
-
-
33845394419
-
A mutagenetic tree hidden Markov model for longitudinal clonal HIV sequence data
-
(in the press)
-
Beerenwinkel, N. & Drton, M. A mutagenetic tree hidden Markov model for longitudinal clonal HIV sequence data. Biostatistics (in the press).
-
Biostatistics
-
-
Beerenwinkel, N.1
Drton, M.2
-
44
-
-
30344488472
-
A Grid-based HIV expert system
-
Sloot, P. M., Boukhanovsky, A. V., Keulen, W., Tirado-Ramos, A. & Boucher, C. A. A Grid-based HIV expert system. J. Clin. Monit. Comput. 19, 263-278 (2005).
-
(2005)
J. Clin. Monit. Comput.
, vol.19
, pp. 263-278
-
-
Sloot, P.M.1
Boukhanovsky, A.V.2
Keulen, W.3
Tirado-Ramos, A.4
Boucher, C.A.5
-
45
-
-
13244272617
-
Relating HIV-1 sequence variation to replication capacity via trees and forests
-
Article 2
-
Segal, M. R., Barbour, J. D. & Grant, R. M. Relating HIV-1 sequence variation to replication capacity via trees and forests. Stat. Appl. Genet. Mol. Biol. 3, Article 2 (2004).
-
(2004)
Stat. Appl. Genet. Mol. Biol.
, vol.3
-
-
Segal, M.R.1
Barbour, J.D.2
Grant, R.M.3
-
46
-
-
18944374818
-
Multiple testing and data adaptive regression: An application to HIV-1 sequence data
-
Article 8
-
Birkner, M. D., Sinisi, S. E. & Van der Laan, M. Multiple testing and data adaptive regression: An application to HIV-1 sequence data. Stat. Appl. Genet. Mol. Biol. 4, Article 8 (2005).
-
(2005)
Stat. Appl. Genet. Mol. Biol.
, vol.4
-
-
Birkner, M.D.1
Sinisi, S.E.2
Van der Laan, M.3
-
47
-
-
33748852760
-
Treatment history and adherence information significantly improves prediction of virological response by neural networks
-
Larder, B. et al. Treatment history and adherence information significantly improves prediction of virological response by neural networks. Antivir. Ther. 10, S57 (2005).
-
(2005)
Antivir. Ther.
, vol.10
-
-
Larder, B.1
-
48
-
-
20944446492
-
Virological and pharmacological parameters predicting the response to lopinavir-ritonavir in heavily protease inhibitor-experienced patients
-
Marcelin, A. G. et al. Virological and pharmacological parameters predicting the response to lopinavir-ritonavir in heavily protease inhibitor-experienced patients. Antimicrob. Agents Chemother. 49, 1720-1726 (2005).
-
(2005)
Antimicrob. Agents Chemother.
, vol.49
, pp. 1720-1726
-
-
Marcelin, A.G.1
-
49
-
-
25144445840
-
Clinical benefit of interventions driven by therapeutic drug monitoring
-
Rendon, A. et al. Clinical benefit of interventions driven by therapeutic drug monitoring. HIV Med. 6, 360-365 (2005).
-
(2005)
HIV Med.
, vol.6
, pp. 360-365
-
-
Rendon, A.1
-
50
-
-
0037308542
-
Genotypic inhibitory quotient as predictor of virological response to ritonavir-amprenavir in human immunodeficiency virus type 1 protease inhibitor-experienced patients
-
Marcelin, A. G. et al. Genotypic inhibitory quotient as predictor of virological response to ritonavir-amprenavir in human immunodeficiency virus type 1 protease inhibitor-experienced patients. Antimicrob. Agents Chemother. 47, 594-600 (2003).
-
(2003)
Antimicrob. Agents Chemother.
, vol.47
, pp. 594-600
-
-
Marcelin, A.G.1
-
51
-
-
0034701490
-
Adherence and drug resistance: Predictions for therapy outcome
-
Wahl, L. M. & Nowak, M. A. Adherence and drug resistance: Predictions for therapy outcome. Proc. Biol. Sci. 267, 835-843 (2000).
-
(2000)
Proc. Biol. Sci.
, vol.267
, pp. 835-843
-
-
Wahl, L.M.1
Nowak, M.A.2
-
52
-
-
0142010633
-
Assessing resistance costs of antiretroviral therapies via measures of future drug options
-
Jiang, H. et al. Assessing resistance costs of antiretroviral therapies via measures of future drug options. J. Infect. Dis. 188, 1001-1008 (2003).
-
(2003)
J. Infect. Dis.
, vol.188
, pp. 1001-1008
-
-
Jiang, H.1
-
53
-
-
33644792666
-
Update of the drug resistance mutations in HIV-1: Fall 2005
-
Johnson, V. A. et al. Update of the drug resistance mutations in HIV-1: fall 2005. Top. HIV Med. 13, 125-131 (2005).
-
(2005)
Top. HIV Med.
, vol.13
, pp. 125-131
-
-
Johnson, V.A.1
-
54
-
-
33748846610
-
-
in (eds Leser, U., Naumann, F. & Eckman, B. A.) (Springer, New York)
-
Roomp, K. et al. in Data Integration in the Life Sciences (eds Leser, U., Naumann, F. & Eckman, B. A.) 185-194 (Springer, New York, 2006).
-
(2006)
Data Integration in the Life Sciences
, pp. 185-194
-
-
Roomp, K.1
-
55
-
-
27844531602
-
Thymidine analogue mutation profiles: Factors associated with acquiring specific profiles and their impact on the virological response to therapy
-
Cozzi-Lepri, A. et al. Thymidine analogue mutation profiles: Factors associated with acquiring specific profiles and their impact on the virological response to therapy. Antivir. Ther. 10, 791-802 (2005).
-
(2005)
Antivir. Ther.
, vol.10
, pp. 791-802
-
-
Cozzi-Lepri, A.1
|