G. Pillai, F. Mentr-É, and J. Steimer, Non-Linear Mixed Effects Modeling ??? From Methodology and Software Development to Driving Implementation in Drug Development Science, Journal of Pharmacokinetics and Pharmacodynamics, vol.72, issue.6, pp.161-183, 2005.
DOI : 10.1007/s10928-005-0062-y

B. Deylon, M. Lavielle, and E. Moulines, Convergence of a stochastic approximation version of EM algorithm, Ann Stat, vol.27, pp.94-128, 1999.

A. Samson, M. Lavielle, and F. Mentr-É, The SAEM algorithm for group comparison tests in longitudinal data analysis based on non-linear mixed-effects model, Statistics in Medicine, vol.13, issue.27, pp.4860-4875, 2007.
DOI : 10.1002/sim.2950
URL : https://hal.archives-ouvertes.fr/hal-00263511

G. Box and S. Andersen, Permutation theory in the derivation of robust criteria and the study of departures from assumption, J R Stat Soc Ser B Meth, vol.17, pp.1-34, 1955.

S. Beal, Ways to fit a PK model with some data below the quantification limit, Journal of Pharmacokinetics and Pharmacodynamics, vol.28, issue.5, pp.481-504, 2001.
DOI : 10.1023/A:1012299115260

J. Fellay, C. Marzolini, E. Meaden, D. Back, T. Buclin et al., Response to antiretroviral treatment in HIV-1-infected individuals with allelic variants of the multidrug resistance transporter 1: a pharmacogenetics study, The Lancet, vol.359, issue.9300, pp.30-36, 2002.
DOI : 10.1016/S0140-6736(02)07276-8

C. Solas, N. Simon, N. Drogoul, S. Quaranta, V. Frixon-marin et al., Minimal effect of MDR1 and CYP3A5 genetic polymorphisms on the pharmacokinetics of indinavir in HIV-infected patients, British Journal of Clinical Pharmacology, vol.58, issue.3, pp.353-362, 2007.
DOI : 10.1111/j.1742-7843.2006.pto_249.x

T. Sakaeda, T. Nakamura, and K. Okumura, MDR1 Genotype-Related Pharmacokinetics and Pharmacodynamics, Biological & Pharmaceutical Bulletin, vol.25, issue.11, pp.1391-1400, 2002.
DOI : 10.1248/bpb.25.1391

C. Marzolini, E. Paus, T. Buclin, and R. Kim, Polymorphisms in human MDR1 (P-glycoprotein): recent advances and clinical relevance, Clinical Pharmacology & Therapeutics, vol.75, issue.1, pp.13-33, 2003.
DOI : 10.1016/j.clpt.2003.09.012

D. Sackett, R. Haynes, G. Guyatt, and P. Tugwellrada, Clinical Epidemiology. A basic Science for Clinical Medecine Little Brown, Boston, vol.2, 1991.

M. Karlsson and R. Savic, Diagnosing Model Diagnostics, Clinical Pharmacology & Therapeutics, vol.23, issue.1, pp.17-20, 2007.
DOI : 10.1038/sj.clpt.6100241

C. Robert, The Bayesian Choice. A Decision-Theoretic Motivation, 1994.

G. Verbeke and G. Molenberghs, Linear Mixed Models for Longitudinal Data, 2000.
DOI : 10.1007/978-1-4612-2294-1_3

X. Panhard, A. Samson, E. Jonsson, and M. Karlsson, Extension of the SAEM algorithm for nonlinear mixed models with 2 levels of random effects Assessment of actual significance levels for covariate effects in NONMEM, Biostatistics . J Pharmacokinet Pharmacodyn, vol.10, issue.28, pp.121-135, 2009.

J. Gobburu and J. Lawrence, Application of resampling techniques to estimate exact significance levels for covariate selection during nonlinear mixed effects model building: some inferences, Pharmaceutical Research, vol.19, issue.1, pp.92-98, 2002.
DOI : 10.1023/A:1013615701857

P. Bonate, Covariate Detection in Population Pharmacokinetics Using Partially Linear Mixed Effects Models, Pharmaceutical Research, vol.40, issue.4, pp.541-549, 2005.
DOI : 10.1007/s11095-005-2492-z

E. Comets and F. Mentr-É, EVALUATION OF TESTS BASED ON INDIVIDUAL VERSUS POPULATION MODELING TO COMPARE DISSOLUTION CURVES, Journal of Biopharmaceutical Statistics, vol.11, issue.3, pp.107-123, 2001.
DOI : 10.1081/BIP-100107652

X. Panhard and F. Mentr-É, Evaluation by simulation of tests based on non-linear mixed-effects models in pharmacokinetic interaction and bioequivalence cross-over trials, Statistics in Medicine, vol.83, issue.10
DOI : 10.1002/sim.2047

G. Box, Some Theorems on Quadratic Forms Applied in the Study of Analysis of Variance Problems, I. Effect of Inequality of Variance in the One-Way Classification, The Annals of Mathematical Statistics, vol.25, issue.2, pp.290-302, 1954.
DOI : 10.1214/aoms/1177728786

J. Crow and . Hardy, Weinberg and language impediments, Genetics, vol.152, pp.821-825, 1999.

X. Panhard, A. Taburet, C. Piketti, and F. Mentr-É, Impact of modelling intra-subject variability on tests based on non-linear mixed-effects models in cross-over pharmacokinetic trials with application to the interaction of tenofovir on atazanavir in HIV patients, Statistics in Medicine, vol.13, issue.6, pp.1268-1284, 2007.
DOI : 10.1002/sim.2622
URL : https://hal.archives-ouvertes.fr/inserm-00157143

C. Dartois, A. Lemenuel-diot, C. Laveille, B. Tranchand, M. Tod et al., Evaluation of Uncertainty Parameters Estimated by Different Population PK Software and Methods, Journal of Pharmacokinetics and Pharmacodynamics, vol.21, issue.3, pp.289-311, 2007.
DOI : 10.1007/s10928-006-9046-9

E. Kuhn and M. Lavielle, Maximum likelihood estimation in nonlinear mixed effects models, Computational Statistics & Data Analysis, vol.49, issue.4, pp.1020-1058, 2005.
DOI : 10.1016/j.csda.2004.07.002

D. White, C. Walawander, D. Liu, and T. Grasela, Evaluation of hypothesis testing for comparing two populations using NONMEM analysis, Journal of Pharmacokinetics and Biopharmaceutics, vol.69, issue.3, pp.295-313, 1992.
DOI : 10.1007/BF01062529

P. Lee, Design and power of a population pharmacokinetic study, Pharmaceutical Research, vol.18, issue.1, pp.75-82, 2001.
DOI : 10.1023/A:1011030827847

B. Manly and . Randomization, Bootstrap and Monte Carlo Methods in Biology, 1998.

D. Elston, Estimation of Denominator Degrees of Freedom of F-Distributions for Assessing Wald Statistics for Fixed-Effect Factors in Unbalanced Mixed Models, Biometrics, vol.54, issue.3, pp.1085-1096, 1998.
DOI : 10.2307/2533859

M. Chou, J. Bertrand, O. Segeral, C. Verstuyft, L. Borand et al., Inter-and intra-patient variabilities in nevirapine plasma concentrations in HIV-infected cambodian patients and the effect of CYP2B6 genetic polymorphism: ANRS 12154 study, 16th Conference on Retroviruses and Opportunistic Infections Montreal, 2009.

S. Gabriel, S. Schaffner, H. Nguyen, J. Moore, J. Roy et al., The Structure of Haplotype Blocks in the Human Genome, Science, vol.296, issue.5576, pp.2225-2229, 2002.
DOI : 10.1126/science.1069424

L. Zhang, S. Beal, and L. Sheiner, Simultaneous vs. Sequential Analysis for Population PK/PD Data I: Best-Case Performance, Journal of Pharmacokinetics and Pharmacodynamics, vol.30, issue.6, pp.387-404, 2003.
DOI : 10.1023/B:JOPA.0000012998.04442.1f