Boris Hejblum

65
Documents

Publications

Publications

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Post-clustering difference testing: valid inference and practical considerations

Benjamin Hivert , Denis Agniel , Rodolphe Thiébaut , Boris P. Hejblum
Computational Statistics and Data Analysis, 2024, 193, pp.107916. ⟨10.1016/j.csda.2023.107916⟩
Article dans une revue hal-03889565 v1

ChatGPT et au-delà avec l’intelligence artificielle en santé : des leçons à tirer

Rodolphe Thiébaut , Boris P. Hejblum , Fleur Mougin , Christophe Tzourio , Laura Richert
Revue du Rhumatisme, 2024, 91 (1), pp.12-15. ⟨10.1016/j.rhum.2023.07.007⟩
Article dans une revue hal-04466670 v1
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Neglecting normalization impact in semi-synthetic RNA-seq data simulation generates artificial false positives

Boris Hejblum , Kalidou Ba , Rodolphe Thiébaut , Denis Agniel
Genome Biology, 2024, 25 (1), pp.281. ⟨10.1101/2022.05.10.490529⟩
Article dans une revue hal-03908246 v1
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Clonal succession after prolonged antiretroviral therapy rejuvenates CD8<sup>+</sup> T cell responses against HIV-1

Eoghann White , Laura Papagno , Assia Samri , Kenji Sugata , Boris P. Hejblum et al.
Nature Immunology, 2024, 25 (9), pp.1555-1564. ⟨10.1038/s41590-024-01931-9⟩
Article dans une revue hal-04703528 v1
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Modéliser la COVID-19 : de la population à l’individu

Carole Vignals , Boris P. Hejblum , Mélanie Prague
Interstices, 2023
Article dans une revue hal-04230705 v1
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ChatGPT and beyond with artificial intelligence (AI) in health: Lessons to be learned.

Rodolphe Thiebaut , Boris P. Hejblum , Fleur Mougin , Christophe Tzourio , Laura Richert
Joint Bone Spine, 2023, 90 (5), pp.105607. ⟨10.1016/j.jbspin.2023.105607⟩
Article dans une revue hal-04236822 v1
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Doubly-robust evaluation of high-dimensional surrogate markers

Denis Agniel , Boris Hejblum , Rodolphe Thiébaut , Layla Parast
Biostatistics, 2023, 24 (4), pp.985-999. ⟨10.1093/biostatistics/kxac020⟩
Article dans une revue hal-03100499 v1
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Using Population Based Kalman Estimator to Model COVID-19 Epidemic in France: Estimating the Effects of Non-Pharmaceutical Interventions on the Dynamics of Epidemic

Annabelle Collin , Boris P. Hejblum , Carole Vignals , Laurent Lehot , Rodolphe Thiébaut et al.
The international journal of biostatistics, In press, ⟨10.1515/ijb-2022-0087⟩
Article dans une revue hal-04151651 v1
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CytOpT: Optimal Transport with Domain Adaptation for Interpreting Flow Cytometry data

Paul Freulon , Jérémie Bigot , Boris Hejblum
Annals of Applied Statistics, 2023, 17 (2), pp.1086-1104. ⟨10.1214/22-AOAS1660⟩
Article dans une revue hal-03100405 v1
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Identification of early gene expression profiles associated with long-lasting antibody responses to the Ebola vaccine Ad26.ZEBOV/MVA-BN-Filo

Fabiola Blengio , Hakim Hocini , Laura Richert , Cécile Lefebvre , Melany Durand et al.
Cell Reports, 2023, 42 (9), pp.113101. ⟨10.1016/j.celrep.2023.113101⟩
Article dans une revue hal-04273901 v1

High temporal resolution transcriptomic profiling delineates distinct patterns of interferon response following Covid-19 mRNA vaccination and SARS-CoV2 infection

Darawan Rinchai , Sara Deola , Gabriele Zoppoli , Basirudeen Syed Ahamed Kabeer , Sara Taleb et al.
Science Advances , 2022, 8 (45), eabp9961. ⟨10.1126/sciadv.abp9961⟩
Article dans une revue hal-03530948 v1

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

Laura Richert , Jean-Daniel Lelievre , Christine Lacabaratz , Lucile Hardel , Hakim Hocini et al.
Journal of Immunology, 2022, 208 (12), pp.2663-2674. ⟨10.4049/jimmunol.2101076⟩
Article dans une revue hal-03690137 v1

The benefit of augmenting open data with clinical data-warehouse EHR for forecasting SARS-CoV-2 hospitalizations in Bordeaux area, France

Thomas Ferté , Vianney Jouhet , Romain Griffier , Boris Hejblum , Rodolphe Thiébaut
JAMIA open, 2022, 5 (4), ⟨10.1093/jamiaopen/ooac086⟩
Article dans une revue hal-03908260 v1
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CD177, a specific marker of neutrophil activation, is associated with coronavirus disease 2019 severity and death

Yves Lévy , Aurélie Wiedemann , Boris P. Hejblum , Mélany Durand , Cécile Lefebvre et al.
iScience, 2021, 24 (7), pp.102711. ⟨10.1016/j.isci.2021.102711⟩
Article dans une revue hal-03477973 v1
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Predicting Progression to Advanced Age-Related Macular Degeneration from Clinical, Genetic, and Lifestyle Factors Using Machine Learning

Soufiane Ajana , Audrey Cougnard-Grégoire , Johanna Colijn , Bénédicte M.J. Merle , Timo Verzijden et al.
Ophthalmology: Journal of The American Academy of Ophthalmology, 2021, 128 (4), pp.587-597. ⟨10.1016/j.ophtha.2020.08.031⟩
Article dans une revue hal-03100320 v1
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Automatic phenotyping of electronical health record: PheVis algorithm

Thomas Ferté , Sébastien Cossin , Thierry Schaeverbeke , Thomas Barnetche , Vianney Jouhet et al.
Journal of Biomedical Informatics, 2021, 117, pp.103746. ⟨10.1016/j.jbi.2021.103746⟩
Article dans une revue hal-03100435 v1
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EpidemiOptim: a Toolbox for the Optimization of Control Policies in Epidemiological Models

Cédric Colas , Boris P. Hejblum , Sébastien Rouillon , Rodolphe Thiébaut , Pierre-Yves Oudeyer et al.
Journal of Artificial Intelligence Research, 2021, 71, pp.479-515. ⟨10.1613/jair.1.12588⟩
Article dans une revue hal-03099898 v2
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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

Sophie Lefevre-Arbogast , Boris P. Hejblum , Catherine Helmer , C. Klose , Claudine Manach et al.
EBioMedicine, 2021, 64, pp.103216. ⟨10.1016/j.ebiom.2021.103216⟩
Article dans une revue hal-03155026 v1
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Bayesian mixture models for cytometry data analysis

Lin Lin , Boris Hejblum
Wiley Interdisciplinary Reviews: Computational Statistics, In press, 13 (4), pp.e1535. ⟨10.1002/wics.1535⟩
Article dans une revue hal-03100447 v1
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Robust and Efficient Optimization Using a Marquardt-Levenberg Algorithm with R Package marqLevAlg

Viviane Philipps , Boris P. Hejblum , Mélanie Prague , Daniel Commenges , Cécile Proust-Lima
The R Journal, In press, ⟨10.32614/RJ-2021-089⟩
Article dans une revue hal-03100489 v1

ATLAS: an automated association test using probabilistically linked health records with application to genetic studies

Harrison Zhang , Boris P. Hejblum , Griffin Weber , Nathan Palmer , Susanne Churchill et al.
Journal of the American Medical Informatics Association, 2021, 28 (12), pp.2582-2592. ⟨10.1093/jamia/ocab187⟩
Article dans une revue hal-03478039 v1
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Predicting the retinal content in omega‐3 fatty acids for age‐related macular‐degeneration

Niyazi Acar , Bénédicte M. J. Merle , Soufiane Ajana , Zhiguo He , Stéphane Grégoire et al.
Clinical and Translational Medicine, 2021, 11 (7), pp.e404. ⟨10.1002/ctm2.404⟩
Article dans une revue hal-03293612 v1
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Long-lasting severe immune dysfunction in Ebola virus disease survivors

Aurélie Wiedemann , Emile Foucat , Hakim Hocini , Cécile Lefebvre , Boris Hejblum et al.
Nature Communications, 2020, 11 (1), pp.3730. ⟨10.1038/s41467-020-17489-7⟩
Article dans une revue hal-03160838 v2
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Immune Alterations in a Patient with SARS-CoV-2-Related Acute Respiratory Distress Syndrome

Lila Bouadma , Aurélie Wiedemann , Juliette Patrier , Mathieu Surénaud , Paul-Henri Wicky et al.
Journal of Clinical Immunology, 2020, 40, pp.1082-1092. ⟨10.1007/s10875-020-00839-x⟩
Article dans une revue hal-03160737 v2
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Analyzing cellular immunogenicity in vaccine clinical trials: a new statistical method including non-specific responses for accurate estimation of vaccine effect

Édouard Lhomme , Boris Hejblum , Christine Lacabaratz , Aurélie Wiedemann , Jean-Daniel Lelièvre et al.
Journal of Immunological Methods, 2020, 477, pp.112711. ⟨10.1016/j.jim.2019.112711⟩
Article dans une revue hal-03161945 v2
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dearseq: a variance component score test for RNA-Seq differential analysis that effectively controls the false discovery rate

Marine Gauthier , Denis Agniel , Rodolphe Thiébaut , Boris Hejblum
NAR Genomics and Bioinformatics, 2020, 2 (4), pp.lqaa093. ⟨10.1093/nargab/lqaa093⟩
Article dans une revue hal-02138664 v1
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Semi-supervised estimation of covariance with application to phenome-wide association studies with electronic medical records data

Stephanie F Chan , Boris P. Hejblum , Abhishek Chakrabortty , Tianxi Cai
Statistical Methods in Medical Research, 2020, 29 (2), pp.455-465. ⟨10.1177/0962280219837676⟩
Article dans une revue hal-02425459 v1
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Sequential Dirichlet Process Mixtures of Multivariate Skew t-distributions for Model-based Clustering of Flow Cytometry Data

Boris P. Hejblum , Chariff Alkhassim , Raphael Gottardo , François Caron , Rodolphe Thiébaut
Annals of Applied Statistics, 2019, 13 (1), pp.638-660. ⟨10.1214/18-AOAS1209⟩
Article dans une revue hal-01579063 v1
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Benefits of dimension reduction in penalized regression methods for high dimensional grouped data: a case study in low sample size

Soufiane Ajana , Niyazi Acar , Lionel Brétillon , Boris Hejblum , Hélène Jacqmin-Gadda et al.
Bioinformatics, 2019, 35, pp.3628-3634. ⟨10.1093/bioinformatics/btz135⟩
Article dans une revue hal-02425449 v1
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Probabilistic record linkage of de-identified research datasets with discrepancies using diagnosis codes

Boris P. Hejblum , Griffin M. Weber , Katherine P. Liao , Nathan P Palmer , Susanne Churchill et al.
Scientific Data , 2019, 6, pp.180298. ⟨10.1038/sdata.2018.298⟩
Article dans une revue hal-01942279 v1
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Diet-Related Metabolites Associated with Cognitive Decline Revealed by Untargeted Metabolomics in a Prospective Cohort

Dorrain Low , Sophie Lefèvre-Arbogast , Raúl Dominguez-Gonzalez , Mireia Urpi Sarda , Pierre Micheau et al.
Molecular Nutrition and Food Research, 2019, 63 (18), pp.e1900177. ⟨10.1002/mnfr.201900177⟩
Article dans une revue hal-02167524 v1
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Sequential Dirichlet process mixture of skew $t$-distributions for model-based clustering of flow cytometry data

Boris P. Hejblum , Chariff Alkhassim , Raphael Gottardo , François Caron , Rodolphe Thiébaut
Annals of Applied Statistics, 2019, 13 (1), pp.638-660
Article dans une revue hal-03161057 v1
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Gene Expression Signatures Associated With Immune and Virological Responses to Therapeutic Vaccination With Dendritic Cells in HIV-Infected Individuals

Rodolphe Thiébaut , Boris P. Hejblum , Hakim Hocini , Henri Bonnabau , Jason Skinner et al.
Frontiers in Immunology, 2019, 10, ⟨10.3389/fimmu.2019.00874⟩
Article dans une revue hal-02267014 v2
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PheProb: probabilistic phenotyping using diagnosis codes to improve power for genetic association studies

Jennifer A Sinnott , Fiona Cai , Sheng Yu , Boris P. Hejblum , Chuan Hong et al.
Journal of the American Medical Informatics Association, 2018, ⟨10.1093/jamia/ocy056⟩
Article dans une revue hal-01887930 v1
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Pattern of polyphenol intake and the long-term risk of dementia in older persons

Sophie Lefèvre-Arbogast , David Gaudout , Julien Bensalem , Luc Letenneur , Jean-François Dartigues et al.
Neurology, 2018, 90 (22), pp.e1979 - e1988. ⟨10.1212/WNL.0000000000005607⟩
Article dans une revue hal-01887895 v1
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Association between anti-citrullinated fibrinogen antibodies and coronary artery disease in rheumatoid arthritis

Boris P. Hejblum , Jing Cui , Lauren J. Lahey , Andrew Cagan , Jeffrey A. Sparks et al.
Arthritis Care & Research = Arthritis Care and Research, 2018, 70 (7), pp.1113-1117. ⟨10.1002/acr.23444⟩
Article dans une revue hal-01654403 v1
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cytometree: A binary tree algorithm for automatic gating in cytometry analysis

Daniel Commenges , Chariff Alkhassim , Raphael Gottardo , Boris P. Hejblum , Rodolphe Thiébaut
Cytometry Part A, 2018, 93 (11), pp.1132-1140. ⟨10.1002/cyto.a.23601⟩
Article dans une revue hal-03161874 v2
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Kernel machine score test for pathway analysis in the presence of semi-competing risks

Matey Neykov , Boris P. Hejblum , Jennifer A Sinnott
Statistical Methods in Medical Research, 2018, Statistical Methods in Medical Research, 27 (4), pp.1099-1114. ⟨10.1177/0962280216653427⟩
Article dans une revue hal-01395970 v1
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Variance component score test for time-course gene set analysis of longitudinal RNA-seq data

Denis Agniel , Boris P. Hejblum
Biostatistics, 2017, Biostatistics, 18 (4), pp.589-604. ⟨10.1093/biostatistics/kxx005⟩
Article dans une revue hal-01579077 v1
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Systems Vaccinology Identifies an Early Innate Immune Signature as a Correlate of Antibody Responses to the Ebola Vaccine rVSV-ZEBOV

Anne Rechtien , Laura Richert , Hadrien Lorenzo , Gloria Martrus , Boris P. Hejblum et al.
Cell Reports, 2017, 20 (9), pp.2251 - 2261. ⟨10.1016/j.celrep.2017.08.023⟩
Article dans une revue hal-01579246 v1
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Phenome-Wide Association Study of Autoantibodies to Citrullinated and Noncitrullinated Epitopes in Rheumatoid Arthritis

Katherine P. Liao , Jeffrey A Sparks , Boris P. Hejblum , I-Hsin Kuo , Jing Cui et al.
Arthritis & rheumatology, 2017, 69 (4), pp.742 - 749. ⟨10.1002/art.39974⟩
Article dans une revue hal-01654405 v1

Group and sparse group partial least square approaches applied in genomics context

Benoit Liquet , Pierre Lafaye de Micheaux , Boris P. Hejblum , Rodolphe Thiébaut
Bioinformatics, 2016, 32 (1), pp.35-42. ⟨10.1093/bioinformatics/btv535⟩
Article dans une revue hal-01288891 v1
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Time-Course Gene Set Analysis for Longitudinal Gene Expression Data

Boris P. Hejblum , Jason Skinner , Rodolphe Thiébaut
PLoS Computational Biology, 2015, 11 (6), pp.e1004310. ⟨10.1371/journal.pcbi.1004310⟩
Article dans une revue hal-01203446 v1

Systems analysis of sex differences reveals an immunosuppressive role for testosterone in the response to influenza vaccination.

David Furman , Boris P. Hejblum , Noah Simon , Vladimir Jojic , Cornelia L. Dekker et al.
Proceedings of the National Academy of Sciences of the United States of America, 2014, 111 (2), pp.869-74. ⟨10.1073/pnas.1321060111⟩
Article dans une revue inserm-00933693 v1

L’analyse des « Big Data » en recherche clinique

Rodolphe Thiébaut , Boris P. Hejblum , Laura Richert
Epidemiology and Public Health = Revue d'Epidémiologie et de Santé Publique, 2014, 62 (1), pp.1-4. ⟨10.1016/j.respe.2013.12.021⟩
Article dans une revue inserm-00933691 v1
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Evidence synthesis through a degradation model applied to myocardial infarction.

Daniel Commenges , Boris P. Hejblum
Lifetime Data Analysis, 2013, 19 (1), pp.1-18. ⟨10.1007/s10985-012-9227-3⟩
Article dans une revue inserm-00726036 v1
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Optimizing Reservoir Computing with Genetic Algorithm for High-Dimensional SARS-CoV-2 Hospitalization Forecasting: Impacts of Genetic Algorithm Hyperparameters on Feature Selection and Reservoir Computing Hyperparameter Tuning

Thomas Ferté , Dan Dutartre , Boris P. Hejblum , Romain Griffier , Vianney Jouhet et al.
EA 2024 - 16th International Conference Artificial Evolution, Pierrick Legrand, Oct 2024, Bordeaux, France
Communication dans un congrès hal-04905975 v1
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Reservoir Computing for Short High-Dimensional Time Series: an Application to SARS-CoV-2 Hospitalization Forecast

Thomas Ferté , Dan Dutartre , Boris P. Hejblum , Romain Griffier , Vianney Jouhet et al.
ICML'24: Proceedings of the 41st International Conference on Machine Learning, Jul 2024, Vienna, Austria. pp.13570--13591, ⟨10.5555/3692070⟩
Communication dans un congrès hal-04693930 v1
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Méthodes pour l'inférence post-clustering appliquées à l'expression génique

Benjamin Hivert , Denis Agniel , Rodolphe Thiébaut , Boris P. Hejblum
SFDS 2022 - Journées de Statistique de la SFdS, Jun 2022, Lyon, France
Communication dans un congrès hal-03906534 v1

Untargeted metabolomics in a prospective cohort to identify diet-related metabolites associated with age-related cognitive decline

Sophie Lefèvre-Arbogast , Dorrain Y. Low , Raúl González-Domínguez , Mireia Urpi-Sarda , Pierre Micheau et al.
Alzheimer’s Association International Conference, Jul 2019, Los Angeles, United States
Communication dans un congrès hal-04796946 v1

Untargeted metabolomics in a prospective cohort to identify diet-related metabolites associated with age-related cognitive decline

Dorrain Y. Low , Sophie Lefèvre-Arbogast , Raúl González-Domínguez , Mireia Urpi-Sarda , Pierre Micheau et al.
15th annual conference of the metabolomics society. Metabolomics 2019, Jun 2019, La Hague, Netherlands
Communication dans un congrès hal-04796907 v1

Untargeted profiling of serum samples revealed diet-related metabolites associated with subsequent cognitive decline in the 3-City cohort

Dorrain Y. Low , Sophie Lefèvre-Arbogast , Raúl González-Domínguez , Mireia Urpi-Sarda , Pierre Micheau et al.
13th European Nutrition Conference FENS 2019, Oct 2019, Dublin, Ireland
Poster de conférence hal-04823822 v1

Identification of a circulating biomarker highly associated to retinal omega-3 polyunsaturated fatty acid content: the BLISAR project

Niyazi Acar , Soufiane Ajana , Olivier Berdeaux , Hélène Jacqmin-Gadda , Boris Hejblum et al.
Annual meeting of the association for research in vision and ophthalmology (ARVO), Apr 2019, Vancouver, Canada, United States. Association for Research in Vision and Ophthalmology, Investigative Ophthalmology and Visual Science, 60 (9), 1 p., 2019
Poster de conférence hal-02737963 v1

Association of a predictor of retinal omega-3 polyunsaturated fatty acids with advanced age-related macular degeneration: the BLISAR project

Cécile Delcourt , Soufiane Ajana , Bénédicte Merle , Hélène Jacqmin-Gadda , Boris P. Hejblum et al.
Annual meeting of the association-for-research-in-vision-and-ophthalmology (ARVO), Apr 2019, Vancouver, Canada, United States. Association for Research in Vision and Ophthalmology, Investigative Ophthalmology and Visual Science, 60 (9), 1 p., 2019
Poster de conférence hal-02736092 v1
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Identification of dietary modulators of cognitive function in ageing using metabolomics discovery

Dorrain Low Yanwen , Sophie Lefèvre-Arbogast , Mélanie Pétéra , Pierre Micheau , Delphine Centeno et al.
Journée Scientifique du CRNH Auvergne, Nov 2017, Clermont-Ferrand, Canada. 2017, Journée Scientifique du CRNH Auvergne 2017
Poster de conférence hal-01644048 v1

Identification of dietary modulators of cognitive function in ageing using metabolomics discovery

Dorrain Low Yanwen , Sophie Lefèvre-Arbogast , Mélanie Pétéra , Pierre Micheau , Delphine Centeno et al.
8. International Conference on Polyphenols and Health ICPH 2017, Oct 2017, Québec, Canada. 2017
Poster de conférence hal-01595015 v1
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Vers une recherche reproductible

Loic Desquilbet , Sabrina Granger , Boris Hejblum , Arnaud Legrand , Pascal Pernot et al.
Unité régionale de formation à l'information scientifique et technique de Bordeaux. Unité régionale de formation à l'information scientifique et technique de Bordeaux, pp.1-161, 2019, 979-10-97595-05-0
Ouvrages hal-02144142 v3