Some papers

About the SAEM algorithm

Delyon B., Lavielle M., and Moulines E. "Convergence of a stochastic approximation version of the EM algorithm" The Annals of Stat., vol 27, no. 1, pp 94-128, 1999.

Kuhn E., Lavielle M. "Coupling a stochastic approximation version of EM with a MCMC procedure" ESAIM P&S, vol.8, pp 115-131, 2004.

Lavielle M., Meza C. "A Parameter Expansion version of the SAEM algorithm" Statistics and Computing (to appear), 2007.

Donnet S., Samson A. "Estimation of parameters in incomplete data models defined by dynamical systems" Jour. of Stat. Planning and Inference (to appear), 2007.

Meza C., Jaffrezic F., Foulley J.L. "REML estimation of variance parameters in non linear mixed effects models using the SAEM algorithm" The Biometrical Journal (to appear), 2007.

Donnet S., Samson A. "Parametric inference for mixed models defined by stochastic differential equations" (submitted), 2007.

Applications of the SAEM algorithm

Makowski D., Lavielle M. "Using SAEM to estimate parameters of models of response to applied fertilizer" Journal of agricultural, Biological and Enviromental Statistics, vol. 11, n. 1, pp. 45-60, 2006.

Samson A., Lavielle M., Mentré F. "Extension of the SAEM algorithm to left-censored data in non-linear mixed-effects model: application to HIV dynamics models" Computational Statistics and Data Analysis, vol. 51, pp. 1562--1574, 2006.

Jaffrezic F., Meza C., Lavielle M., Foulley J.L. "Genetics analysis of growth curves using the SAEM algorithm" Genetics Selection Evolution, vol. 38, pp. 583--600, 2006.

Lavielle M., Mentré F. "Estimation of population pharmacokinetic parameters of saquinavir in HIV patients and covariate analysis with the SAEM algorithm" Journal of Pharmacokinetics and Pharmacodynamics, vol. 34, pp. 229--49, 2007.

Comets E, Verstuyft C, Lavielle M, Jaillon P, Becquemont L, Mentré F. Modelling the influence of MDR1 polymorphism on digoxin pharmacokinetic parameters. European Journal of Clinical Pharmacology, 63, pp. 437-49, 2007.

Samson A., Lavielle M., Mentré F. "The SAEM algorithm for group comparison test in longitudinal data analysis based in nonlinear mixed-effects model" Stat. in Medecine, (to appear), 2007.

About the linear mixed effects models

Foulley J.L. " Cours sur les modèles linéaires à effets mixtes "

Others


Comets E, Mentré F, Grass P, Kawai R, Marbach P, Vonderscher J. Population pharmacodynamic analysis of octreotide in acromegalic patients. Clincical Pharmacology and Therapeutics, 2003, 73: 95-106, 2003.

. Retout S, Mentré F. Further developments of the Fisher information matrix in nonlinear mixed-effects models with evaluation in population pharmacokinetics. Journal of Biopharmaceutical Statistics, 2003, 13: 209-227, 2003.

Servin F, Bourgeois B, Gomeni R, Mentré F, Farinotti R, Desmonts JM. Pharmacokinetics of propofol administrated by target-controlled infusion for alcoholic patients. Anesthesiology, 2003, 99: 576-585, 2003.

Camus M, Henneré G, Baron G, Peytavin G, Massias L, Mentré F, Farinotti R. Therapeutic drug monitoring of lithium concentration in red blood cells and plasma in patients with acute or chronic toxicity. European Journal of Clinical Pharmacology, 2003, 59: 583-587, 2003.

Retout S, Mentré F. Optimisation of individual and population designs using Splus. Journal of Pharmacokinetic and Pharmacodynamics, 2003, 30: 417-443, 2003.

Jacqz-Aigrain E, Debillon T, Daoud P, Boithias C, Hamon I, Rayet I, Popon M, Mentré F. Population pharmacokinetics of nalbuphine in neonates. Paediatric and Perinatal Drug Therapy, 2003, 5: 190-198, 2003.

Trout H, Mentré F, Panhard X, Kodjo A, Escaut L, Pernet P, Gobert JG, Vittecoq D, Knellwolf AL, Caulin C, Bergmann JF. Enhanced saquinavir exposure in HIV-1-infected patients with diarrhea and/or wasting syndrome. Antimicrobial Agents and Chemotherapy, 2004, 48: 538-545, 2004.

Rombout F, Aarons L, Karlsson M, Man A, Mentré F, Nygren P, Racine A , Schaefer H, Steimer JL, Troconiz I, van Peer A and invited COST B15 Experts. Modelling and simulation in the development and use of anti-cancer agents: an underused tool ? Journal of Pharmacokinetics and Pharmacodynamics, 2004, 31: 419-440, 2004.

Bourgoin H, Paintaud G, Büchler M, Lebranchu Y, Autret-Leca E, Mentré F, Le Guellec C. Bayesian estimation of cyclosporin exposure for routine therapeutic drug monitoring in kidney transplant patients. British Journal of Clinical Pharmacology, 2005, 59: 18-27, 2005.

Duval X, Mentré F, Lamotte C, Chêne G, Spire B, Dellamonica P, Panhard X, Salmon D, Raffi F, Peytavin G, Leport C and the APROCO study group. Early virological response is associated with indinavir plasma concentration in fully adherent HIV-infected patients of the APROCO cohort. Therapeutic Drug Monitoring 2005, 27: 63-70, 2005.

Panhard X, Mentré F. Evaluation by simulation of tests based on non-linear mixed-effects models in pharmacokinetics interaction and bioequivalence cross-over trials. Statistics in Medicine, 2005, 30: 1509-1524, 2005.

Brendel K, Legrand M, Taburet AM, Baron G, Goujard C, Mentré F and the Cophar 1 – ANRS 102 trial group. Population pharmacokinetics analysis of indinavir in HIV-infected patients treated with a stable antiretroviral therapy. Fundamental and Clinical Pharmacology, 2005, 19: 373-383, 2005.

Panhard X, , Goujard C, Legrand M, Taburet AM, Mentré F and the Cophar 1 – ANRS 102 trial group. Population pharmacokinetics analysis of nelfinavir and M8 in controlled HIV-infected patients on HAART. British Journal of Clinical Pharmacology, 2005, 60: 390-403, 2005.

Verstuyft C, Marcellin F, Morand-Joubert L, Launay O, Brendel K, Mentré F, Peytavin G, Gérard L, Becquemont L, Aboulker JP for the ANRS081 Study Group. Absence of association between MDR1 genetic polymorphisms, indinavir pharmacokinetics and response to HAART. AIDS, 2005, 19: 2127-231, 2005.

Colin P, Mentré F, Steimer JL. Non-linear mixed effects modeling – from methodology and software development to driving implementation in drug development science. Journal of Pharmacokinetics and Pharmacodynamics, 2005, 32: 161-183, 2005.

Panhard X, Taburet AM, Piketti C, Mentré F. Impact of modelling intra-subject variability on tests based on non-linear mixed-effects models in cross-over PK trials with application to the interaction of tenofovir on atazanavir in HIV patients. Statistics in Medicine, 2007, 26, 1268-1284, 2006.

Brendel K, Dartois C, Comets E, Lemmenuel-Diot A, Laveille C, Tranchand B, Girard P, Laffont CM, Mentré F. Are population PK and/or PD models adequately evaluated ? A 2002 to 2004 literature survey. Clinical Pharmacokinetics, 46, 221-234, 2006.

Collin F, Chêne G, Retout S, Peytavin G, Salmon D, Bouvet E, Raffi F, Garraffo R, Mentré F, Duval X and the ANRS CO8 Aproco-Copilote Study Group. Indinavir trough concentrations as determinant of early nephrolithaisis in HIV1- infected adults. Therapeutic Drug Monitoring, (to appear), 2007.

Retout S, Comets E, Samson A, Mentré F. Design in nonlinear mixed effects models: optimization using the Fedorov-Wynn algorithm and power of the Wald test for binary covariates. Statistics in Medicine, (to appear), 2007.

Jaffrezic F., Marot G., Degrelle S., Hue I., Foulley J.-L., A structural model for variances in differentially gene expression studies. Genetical Research, (to appear), 2007.