Publications

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(2022). Doubly-robust evaluation of high-dimensional surrogate markers. Biostatistics kxac020, in press.

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(2022). T-cell immunogenicity, gene expression profile and safety of four heterologous prime-boost combinations of HIV vaccine candidates in healthy volunteers - results of the randomized multi-arm phase I/II ANRS VRI01 trial. Journal of Immunology, in press.

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(2021). High temporal resolution transcriptomic profiling delineates distinct patterns of interferon response following Covid-19 mRNA vaccination and SARS-CoV2 infection. bioRxiv, 2021.12.12.472257.

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(2021). ATLAS: An automated association test using probabilistically linked health records with application to genetic studies. JAMIA, 28(12):2582-2592.

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(2021). Gene Set Analysis for time-to-event outcome with the Generalized Berk–Jones statistic. bioRxiv 2021.09.07.459329.

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(2021). EpidemiOptim: A Toolbox for the Optimization of Control Policies in Epidemiological Models. JAIR, 71:479–519.

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(2021). CD177, a specific marker of neutrophil activation, is a hallmark of COVID-19 severity and death. iScience, 24(7):102711.

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(2021). Using population based Kalman estimator to model COVID-19 epidemics in France: estimating the burden of SARS-CoV-2 and the effects of NPI. medRxiv 2021.07.09.21260259.

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(2021). Bayesian Mixture Models for Cytometry Data Analysis. WIREs Comp. Stat. 13(4):e1535.

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(2021). Predicting the retinal content in omega-3 fatty acids for age-related macular-degeneration. Clin. Transl. Med., 11:e404.

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(2021). Distribution-free complex hypothesis testing for single-cell RNA-seq differential expression analysis. bioRxiv 2021.05.21.445165.

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(2021). Predicting progression to advanced age-related macular degeneration from clinical, genetic and lifestyle factors using machine learning. Ophthalmology 128(4):587-597.

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(2021). Automatic phenotyping of electronical health record: PheVis algorithm. Journal of Biomedical Informatics, 117:103746.

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(2021). 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, 64:103216.

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(2020). Robust and Efficient Optimization Using a Marquardt-Levenberg Algorithm with R Package `marqLevAlg`. R journal in press.

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(2020). Immune alterations during SARS-CoV-2-related acute respiratory distress syndrome. Journal of Clinical Immunology, 40:1082-1092.

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(2020). Long-lasting severe immune dysfunction in Ebola virus disease survivors. Nat Commun 11, 3730.

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(2020). Realistic and Robust Reproducible Research for Biostatistics. Preprints 2020060002.

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(2020). Population modeling of early COVID-19 epidemic dynamics in French regions and estimation of the lockdown impact on infection rate. medRxiv 2020.04.21.20073536.

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(2019). Benefits of dimension reduction in penalized regression methods for high dimensional grouped data: a case study in low sample size. Bioinformatics, 35(19):3628-3634.

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(2019). Diet‐Related Metabolites Associated with Cognitive Decline Revealed by Untargeted Metabolomics in a Prospective Cohort. Mol. Nutr. Food Res., 63(18):1900177.

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(2019). Vers une recherche reproductible : Faire évoluer ses pratiques. Bordeaux : Urfist de Bordeaux. ISBN : 979-10-97595-05-0.

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(2019). Sequential Dirichlet process mixture of skew t-distributions for model-based clustering of flow cytometry data. Ann. Appl. Stat., 13(1):638-660.

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(2019). Gene expression signatures associated with immune and virological responses to therapeutic vaccination with Dendritic Cells in HIV-infected individuals. Front. Immunol., 10:874.

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(2019). Probabilistic record linkage of de-identified research datasets with discrepancies using diagnosis codes. Sci. Data, 6:180298.

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(2018). cytometree: a binary tree algorithm for automatic gating in cytometry analysis. Cytom. A, 93(11):1132-1140.

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(2018). Association between anti-citrullinated fibrinogen antibodies and coronary artery disease in rheumatoid arthritis. Arthritis Care Res, 70(7):1113-1117.

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(2018). PheProb: probabilistic phenotyping using diagnosis codes to improve power for genetic association studies. JAMIA, 25(10):1359-1365.

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(2018). Pattern of polyphenol intake and the long-term risk of dementia in older persons. Neurology, 90(22):e1979-e1988.

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(2018). Kernel Machine Score Test for Pathway Analysis in the Presence of Semi-Competing Risks. Stat Methods in Med Res, 27(4):1099-1114.

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(2017). Phenome-wide association study of autoantibodies to citrullinated and non-citrullinated epitopes in rheumatoid arthritis. Arthritis & Rheumatology, 69(4):742-749.

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(2017). Systems Vaccinology Identifies an Early Innate Immune Signature as a Correlate of Antibody Responses to the Ebola Vaccine rVSV-ZEBOV. Cell Reports, 20(9):2251-2261.

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(2016). Group and Sparse Group Partial Least Square Approaches Applied in Genomics Context. Bioinformatics, 32(1):35-42.

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(2015). Time-Course Gene Set Analysis for Longitudinal Gene Expression Data. PLoS Comput Biol, 11(6):e1004310.

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(2014). The analysis of 'Big Data' in clinical research. Rev Epidemiol Sante Publique, 62(1):1-4.

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(2014). A systems analysis of sex differences reveals an immunosuppressive role for testosterone in the response to influenza vaccination. Proc Natl Acad Sci USA, 111(2):869-874.

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