Biostatistique

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R packages :

• FRAILTYPACK: R package for Shared, Joint (Generalized) Frailty Models; Surrogate Endpoints

https://cran.r-project.org/web/packages/frailtypack/index.html

https://github.com/socale/frailtypack

• LCMM : Estimation of various models for longitudinal and time-to-event data based on latent classes and latent processes

https://cran.r-project.org/web/packages/lcmm/index.html
https://github.com/CecileProust-Lima/lcmm

• SmoothHazard: A R package for the estimation of illness-death models for interval-censored data
• CinLPN: Estimation of a dynamic causal model based on a system of latent processes
• marqLevAlg: A Parallelized General-Purpose Optimization Based on Marquardt-Levenberg Algorithm

https://cran.r-project.org/web/packages/marqLevAlg/index.html
https://github.com/VivianePhilipps/marqLevAlgParallel/

• JLPM: estimation of different joint models based on latent processes
• NormPsy: Normalisation of Mini Mental State Examination (MMSE)
• weightQuant: Estimation of observation-specific weights for incomplete longitudinal data with selection by death and bootstrap inference procedure for weighted quantile regressions
• MCSPCD :Monte Carlo Simulation for Projections of epidemiological burden of Chronic Disease and evaluation of impact of changes in risk factor distribution for a given year
• QoLSEM: Estimation of a structural equation model for the global analysis of health-related quality of life data
• BQt: Bayesian estimation of quantile regression mixed models
• JMcuR: Estimation of joint models for repeated measurements and time-to-event data included a cure fraction

Other programs :

• CPMCGLM : correction de la p-valeur après plusieurs codages dans les modèles linéaires généralisés
• R code for sparse conditional logistic regression
• PSPMCM: Macro SAS pour l’estimation de modèles de survie de mélange avec une fraction non à risque (Mixture Cure Models)
• MKVPCI : Programme pour l’estimation des modèles de Markov avec intensités de transition constantes par morceaux et covariables.
• Projection with Semi-Markov Model

Carrière

Si vous êtes intéressé(e) par la recherche en biostatistique et plus généralement les statistiques appliquées à la santé, envoyez une candidature motivée à sandrine.darmigny@u-bordeaux.fr. Notre équipe de biostatistique accueille chaque année des stagiaires, doctorants et postdoctorants en biostatistique.

Publications principales

2021-1 Acar N, Merle, BMJ, Ajana, S, …, Jacqmin-Gadda H, Bretillon L, Delcourt C for the Biomarkers of LIpid Status And metabolism in Retinal ageing (BLISAR) Study Group. Predicting the retinal content in omega-3 fatty acids for age-related macular-degeneration. Clin Transl Med 2021, 11(7):e404. https://doi.org/10.1002/ctm2.404

2021-2 Ajana S, Cougnard-Grégoire A, Colijn JM, …, Jacqmin-Gadda H*, Klaver C*, Delcourt C*and on behalf of the EYE-RISK Consortium. (*co-last authors). Predicting progression to advanced age-related macular degeneration from clinical, genetic and lifestyle factors using machine learning, Ophtalmology, 2021, 128(4):587-597.

2021-3 Amadou A, Praud D, Coudon T, …, Leffondre K, …, Mancini FR, Fervers B. Risk of breast cancer associated with long-term exposure to Benzo[a]pyrene (BaP) air pollution: Evidence from the French E3N cohort study. Environ Int 2021; 149:106399.

2021-4 Andersen P. K., Pohar Perme M., van Houwelingen H. C., Cook R. J., Joly P., Martinussen T., Taylor J. M. G., Abrahamowicz M. and Therneau T. M., (2021). Analysis of time-to-event for observational studies: Guidance to the use of intensity models. Stat Med. 2021, 40(1): 185-211.

2021-5 Baussard L, Proust-Lima C, Philipps V, Portales F, Ychou M, Mazard T, Cousson-Gélie, F. Determinants of Distinct Trajectories of Fatigue in Patients Undergoing Chemotherapy for a Metastatic Colorectal Cancer: 6-Month Follow-up Using Growth Mixture Modeling. J Pain Symptom Manage. 2021;S0885-3924(21)00398-5.

2021-6 Ben-Hassen, C., Helmer, C., Berr, C., Jacqmin-Gadda, H. 5-year dynamic prediction of dementia using repeated measures of cognitive tests and a dependency scale. Am J Epidemiol, 2021 (online 9/11/2021) https://doi.org/10.1093/aje/kwab269

2021-07 Branchoux S, Ledoux Sofeu C, Gaudin AF, Kurt M, Moshyk A, Italiano A, Bellera C., Rondeau V. Time to next treatment or death as a candidate surrogate end-point for overall survival in advanced melanoma patients treated with immune-checkpoint inhibitors : an insight from the phase iii checkmate 067 trial. ESMO 2021, 7 :100340.

2021-8 Carles, S., Taddé, B. O., Berr, C., Helmer, C., Jacqmin-Gadda, H., Carrière, I., Proust-Lima, C. Dynamic reciprocal relationships between cognitive and functional declines along the Alzheimer’s disease continuum in the prospective COGICARE study. Alz Res Therapy 2021, 13(1), 1-12.

2021-9 Castel C, Sommen C, Le Strat Y, Alioum A. A multi-state Markov model using notification data to estimate HIV incidence, number of undiagnosed individuals living with HIV, and delay between infection and diagnosis : illustration in France, 2008-2018. Stat Methods Med Res. 2021 Nov;30(11):2382-2398.

2021-10 Castel C, Sommen C, Chatignoux E, Le Strat Y, Alioum A. Bayesian multi-response nonlinear mixed-effect model : application of two recent HIV infection biomarkers. Int J Biostat. 2021 Aug 13. doi: 10.1515/ijb-2021-0030

2021-11 Chamberlain, J. D., Rouanet, A., Dubois, B., …., Chene G, Dufouil C.& Memento Study group. Investigating the association between cancer and the risk of dementia: Results from the Memento cohort. Alzheimer’s & Dementia 2021, 17(9):1415-1421

2021-12 Chauvet J. and Rondeau V. A flexible class of generalized joint frailty models for the analysis of survival endpoints. Statistics in Medicine, In press, 2021.

2021-13 Cheradame J, Piscione J, Carling C, Guinoiseau J-P, Dufour B, Jacqmin-Gadda H *, Decq Ph * (*co-last authors). Incidence and risk factors in concussion events: A 5-season study in the French Top 14 Rugby Union Championship. Am J Sports Med 2021, https://doi.org/10.1177%2F03635465211006480.

2021-14 Dartigues J-F, Le Bourdonnec K, Tabue-Teguo M, …, Amieva H, Proust-Lima C. Co-Occurrence of Geriatric Syndromes and Diseases in the General Population:Assessment of the Dimensions of Aging. J Nutr Health Aging. 2021, https://doi.org/10.1093/gerona/glx068.

2021-15 de Courson H, Ferrer L, Barbieri A, Tully PJ, Woodward M, Chalmers J, Tzourio C*, Leffondré K* (*co-last authors). Impact of Model Choice When Studying the Relationship Between Blood Pressure Variability and Risk of Stroke Recurrence. Hypertension. 2021;78(5):1520-1526.

2021-16 Deygas F, Amadou A, Coudon T, …, Leffondré K, Fervers B, Praud D. Long-term atmospheric exposure to PCB153 and breast cancer risk in a case-control study nested in the French E3N cohort. Environment Research 2021; 195:110743. https://doi.org/10.1016/j.envres.2021.110743

2021-17 Dinart D, Bellera C, and Rondeau V. Sample size estimation for cancer randomized trials in the presence of heterogeneous populations,. Biometrics, 2021; DOI: 10.1111/biom.13527

2021-18 Driollet B, Bayer F, Kwon T,…, Harambat J*, Leffondré K* (*co-last authors). Social deprivation is associated with lower access to pre-emptive kidney transplantation and more urgent-start dialysis in the pediatric population. Kidney International Reports 2021; https://doi.org/10.1016/j.ekir.2021.12.015

2021-19 Du Preez A, Lefèvre-Arbogast S, Houghton V, …,Proust-Lima C,…, Samieri C, Thuret, S. The serum metabolome mediates the concert of diet, exercise, and neurogenesis, determining the risk for cognitive decline and dementia. Alzheimers Dement 2021; https://doi.org/10.1002/alz.12428

2021-20 Emura T., Sofeu C., and Rondeau V.. Conditional copula models for correlated sur- vival endpoints : individual patient data meta-analysis of randomized controlled trials. Stat Med Res, 2021, 30(12); https://doi.org/10.1177%2F09622802211046390

2021-21 Faucon A-L, Leffondré K, Flamant M, Metzger M, Boffa J-J, Haymann J-P, Houillier P, Thervet E, Vrtovsnik F, Proust‐Lima C, Stengel B, Vidal-Petiot E, Geri G, and the NephroTest study group. Trajectory of extracellular fluid volume over time and subsequent risks of end-stage kidney disease and mortality in chronic kidney disease: a prospective cohort study. J Intern Med 2021;289(2):193 205.

2021-22 Frison E, Proust-Lima C, Mangin J-F, Habert M-O, Bombois S, Ousset P-J, et al. Diabetes Mellitus and Cognition: Pathway Analysis in the MEMENTO Cohort. Neurology. 2021;97(8):e836 48.

2021-23 Jacqmin-Gadda H, Ferrer L, Proust-Lima C. Joint Models for Longitudinal and Time to Event Data. In Handbook of Statistical Methods for Randomized, Controlled Trials. Edit: K Kim, F Bretz, YK Cheung, LV Hampson, Chapman and Hall/ CRC Press, 2021

2021-24 Kaboré R, Ferrer L, Couchoud C, Hogan J, …, Harambat J*, Leffondré K* (*co-last authors). Dynamic prediction models for graft failure in pediatric kidney transplantation. Nephrol Dial Transplant 2021; 36(5):927-935.

2021-25 Lefèvre-Arbogast S, Hejblum BP, Helmer C, …, Proust-Lima C,…., Korosi A, Samieri C. Early signature in the blood lipidome associated with subsequent cognitive decline in the elderly: A case-control analysis nested within the Three-City cohort study. EBioMedicine 2021; 64:103216.

2021-26 Lenain R, Boucquemont J, Leffondré K, Couchoud C, Lassalle M, Hazzan M, Foucher Y. Clinical trial emulation by matching time-dependent propensity scores: The example of estimating impact of kidney transplantation. Epidemiology 2021; 32(2):220-229.

2021-27 Mathieu C, Joly P, Jacqmin-Gadda H, Wanneveich M, Bégaud B, Pariente A. Patterns of Benzodiazepine Use and Excess Risk of All-Cause Mortality in the Elderly: A Nationwide Cohort Study. Drug Saf. 2021, 44(1):53-62.

2021-28 Philipps V, Hejblum BP, Prague M, Commenges D, Proust-Lima C. Robust and Efficient Optimization Using a Marquardt-Levenberg Algorithm with R Package marqLevAlg. The R journal 2021; http://arxiv.org/abs/2009.03840

2021-29 Prezelin-Reydit M, Madden L, Macher MA, …, Leffondré K*, Harambat J* (*co-last authors). Preemptive kidney transplantation is associated with transplantation outcomes in children: results from the French kidney replacement therapy registry. Transplantation 2021; https://doi.org/10.1097/TP.0000000000003757

2021-30 Raynaud M, Aubert O, Reese PP, …, Proust-Lima C,…,.Lefaucheur C, Loupy A. Trajectories of glomerular filtration rate and progression to end stage kidney disease after kidney transplantation. Kidney Int 2021;99(1):186 97.

2021-31 Rouanet A, Avila-Rieger J, Dugravot A, , Gross A, Proust-Lima C. How selection over time contributes to the inconsistency of the association between sex/gender and cognitive decline across cognitive aging cohorts. Am J Epidemiol 2021; doi: 10.1093/aje/kwab227

2021-32 Thomas A, Proust-Lima C, Baillet M, Helmer C, Delcourt C, Foubert-Samier A, Catheline G, Feart C, Samieri C. Plasma carotenoids and medial temporal lobe atrophy in older adults. Clin Nutr 2021;40(4):2460 3.

2021-33 Wagner M, Grodstein F, Leffondre K, Samieri C*, Proust-Lima C* (*co-last authors). Time-varying associations between an exposure history and a subsequent health outcome: a landmark approach to identify critical windows. BMC Med Res Methodol 2021;21(1):266

PUBLICATIONS PREPRINT

Devaux A, Genuer R, Pérès K, Proust-Lima C. Individual dynamic prediction of clinical endpoint from large dimensional longitudinal biomarker history: a landmark approach. ArXiv:210201466. 2 févr 2021
Disponible sur http://arxiv.org/abs/2102.01466

Valeri L, Proust-Lima C, Fan W, Chen JT, Jacqmin-Gadda H. A multistate approach for mediation analysis in the presence of semi-competing risks with application in cancer survival disparities. arXiv:210213252. 25 févr 2021; Disponible sur http://arxiv.org/abs/2102.13252

Saulnier T, Philipps V, Meissner WG, Rascol O, Pavy-Le-Traon A, Foubert-Samier A, et al. Joint models for the longitudinal analysis of measurement scales in the presence of informative dropout. arXiv:211002612. 6 oct 2021; Disponible sur http://arxiv.org/abs/2110.02612

Proust-Lima C, Philipps V, Perrot B, Blanchin M, Sébille V. Modeling repeated self-reported outcome data: a continuous-time longitudinal Item Response Theory model. arXiv:210913064. 28 déc 2021; Disponible sur http://arxiv.org/abs/2109.13064

Munsch G, Goumidi L, van Hylckama Vlieg A, Ibrahim-Kosta M, Bruzelius M, Deleuze JF, Rosendaal FR, Jacqmin-Gadda H, Morange PE, Trégouët DA. Modelling of time-to-events in an ambispective study: illustration with the analysis of ABO blood groups on venous throm-bosis recurrence. Disponible sur https://medrxiv.org/cgi/content/short/2021.11.20.21266583v1