7.1.1 CarbPack

• Keywords:
  Climate change, Carbon footprint, Statistical analysis, Greenhouse gas emissions
• Scientific Description:
  Background and objective(s): Greenhouse gas emissions are a major concern worldwide, given their impact on climate change, which in turn threatens human health. Reducing CO2 emissions (carbon footprint) is key to alleviate greenhouse gas emissions. Scientific research activities themselves generate CO2 emissions, and a key professional activity of biostatisticians is the conduct of statistical analyses. Although tools to estimate the carbon footprint of statistical code have been developed in Python and as online calculators, an easy-to-use routine tool for clinical epidemiology units using R is lacking. We aimed at implementing the method available in the online calculator “Green algorithms” (ww.green-algorithms.org: Lannelongue et al. Adv. Sci. 2021) into the R software for embedded use for analyses computed with R. Material and Methods: We developed the CarbPack R package to estimate the carbon footprint of statistical analyses in R. The package serves as a wrapper for the Green Algorithm calculator and operates through two primary functions. The first function, called at the beginning of the analysis script, identifies the hardware used for computation and starts a timer. The second function, called at the conclusion of the script, stops the timer and calculates both the energy consumption and the carbon footprint. This estimation is based on computation duration, energy consumption of key hardware components, and the carbon intensity (French emission factors 2024) of the electricity used. The tool runs concurrently with the computational program and provides an automatic output of the carbon footprint of the analysis. We tested the package on the statistical analyses of four previously analyzed clinical studies according to their pre-defined statistical analysis plan: a prognostic cohort study (NCT02821208), a diagnostic delayed-type cross-sectional study (NCT03695861), a monocenter randomized clinical trial (NCT04113187), and a before-after cohort study (NCT02411669). All studies involved classical statistical analysis methods including descriptive analysis, regression model and linear mixed models. The package is available on Windows and Linux operating systems. Results: The R package, available on GitHub (https://github.com/thomasferte/CarbPack), was used to estimate the carbon footprint of the statistical analyses. The evaluations were conducted on a system with a 6-core AMD Ryzen 5 7530U processor with Radeon Graphics in France. Execution times for a single run of the full analysis per study ranged from 22.7 seconds to 373.29 seconds. Estimated energy consumption varied between 0.13 Wh and 2.17 Wh, with corresponding carbon footprints from 0.01 g CO2e to 0.15 g CO2e. For contextualisation, driving 1 kilometer by car emits approximately 100 g CO2e, the carbon footprint of a portable computer is approximately 350 kg CO2. Conclusion: We developed an R package that provides a straightforward method for estimating the carbon footprint of statistical code on the local computer. This tool is user-friendly, requiring only three lines of code, and offers a rough estimate that can help raise awareness and encourage users to optimize their computational workflows. While the evaluated studies involved relatively simple statistical analyses and low carbon footprints, more computationally intensive tasks, such as those employing extensive resampling methods like bootstrapping, would likely result in higher footprints. Additionally, the reported values represent a single execution, whereas, in practice, multiple iterations are often required to produce the final statistical report. More comprehensive evaluations of the environmental impact of academic clinical epidemiology units are warranted, including the impact of the acquisition of the computer equipments and of data storage.
• Functional Description:
  This package provides an R wrapper for the Green Algorithms, enabling users to quantify the carbon footprint of their computations directly within R.
• URL:
  https://­github.­com/­thomasferte/­CarbPack
• Contact:
  Thomas Ferté
• Participants:
  Thomas Ferte, Laura Richert, Adam Loffler

8.1.1 Valid inference in high-dimension

Participants: Boris Hejblum, Rodolphe Thiébaut.

Statistical inference in high dimension remains challenging. In particular, the sound analysis of transcriptomic data requires valid statistical testing procedures with well calibrated control of of the type I error. In addition, the analysis of high-dimensional longitudinal and time-to-event data bears its own layer of complexity. Another example of the complexity of the analysis of such data is the so-called “double dipping”, i.e. using the same data twice, first to identify clusters and second to identify statistically significant variables diffentiating those clusters. This leads to poor statistical performances overall without carefully adjusting for this double step – yet it is widely used in transcriptomic data analysis for instance. We developped univarite 3 new strategies for valid post-clustering testing in low dimension 30. In addition, two approaches were recentely introduced as candidate that could solve this post-inference clustering issue more generally in certain context, namely data-fission 85 and data-thining 87; and we characterized their limits showing that they cannot be applied in practice for analyzing gene expression data with data-driven sub-groups in immunological studies 61.

8.1.2 New methods for the analysis of high-dimensional longitunal data

Participants: Robin Genuer, Boris Hejblum, Rodolphe Thiébaut.

In many health studies, we have to deal with high-dimensional longitudinal data, meaning that in addition to have a very large number of variables at hand, those are repeatedly mesured over time. As standard machine learning methods are most of the time tailored for independent observations, new approaches have to be developped to adapt to this new framework and use as much as possible all the available information. We introduced several methods to deal with this kind of data: either we see the different measurements of a variables as an individual curves and generalize random forests by using distances between curves leading to Fréchet random forests 22; secondly in 43 we consider those repeated measurements as function and study the behavior of functional principal component analysis in presence of missing data in 43 ; and finally we leverage reservoir computing technique to forecast short high-dimensional time series in 56.

8.1.3 Machine learning applied to EHR

Participants: Marta Avalos, Boris Hejblum, Rodolphe Thiébaut.

Given the recent advances in machine learning, notably thanks to deep-learning and large language models, we are questioning the impact and interest of such approaches for biomedical research and training 44, but also considering their use and added value for leveraging EHR data 27, 56.

8.1.4 Microbiota data

Participants: Marta Avalos.

Recently, the team has been interested in microbiota data analysis. One communication in international conferences showcased the challenges met 51.

8.2.1 Response to Ebola vaccination

Participants: Mélanie Prague, Edouard Lhomme, Rodolphe Thiébaut, Linda Wittkop, Laura Richert.

The major focus of the year was the analysis of the data generated within the PREVAC and EBOVAC series project. First, we better characterize the proliferation of CD8+ T cells and inflammation after Ad26.ZEBOV, MVA-BN-Filo vaccination 32. Second, the five-year follow-up of the PREVAC trial demonstrates that Ad26-MVA and rVSV Ebola vaccine regimens induce sustained long-term T-cell responses, with Ad26-MVA showing superior polyfunctional T-cell activity, and highlights correlations between T-cell and IgG responses 49. Third, we found no significant association between baseline immune markers of helminth exposure and the antibody response to the Ad26.ZEBOV, MVA-BN-Filo Ebola vaccine regimen, despite lower levels of certain inflammatory and activation markers in participants with helminth exposure.19. Finally, we showed that antibody concentrations were higher in children than adults one year post-vaccination, with variations also influenced by geography, pre-vaccination antibody levels, and sex46. Our findings can guide booster vaccination recommendations and help identify populations likely to benefit from revaccination.

8.2.2 Between host modeling of COVID-19 Epidemics

Participants: Mélanie Prague, Rodolphe Thiébaut.

We investigated the effectiveness of non-pharmaceutical interventions (NPIs) implemented in France during the COVID-19 pandemic. We clearly demonstrated the positive effect of vaccination on the epidemics dynamics 26. This is one of the highlight of the year.

8.2.3 Analysis of Vaccine trials with analytic treatment interruptions

Participants: Mélanie Prague, Rodolphe Thiébaut, Linda Wittkop, Laura Richert.

Analytical treatment interruption (ATI) is used in HIV research to evaluate new therapeutic strategies but often involves short phases and strict ART restart criteria, potentially limiting the observation of viral setpoints. This study analyzed viral dynamics from 235 individuals across three trials, focusing on time- and magnitude-related virological criteria. Results showed strong correlations between the time-averaged area under the curve (nAUC) and setpoints, with nAUC emerging as an optimal surrogate endpoint. Recommendations highlight the value of ATI phases longer than 12 weeks with regular monitoring and a restart criterion of 10,000 copies/mL to balance patient safety and data quality 16. This result has important implication for the design of trial witin our EHVA consortium.

8.3.1 Vaccine trial results and milestones

Participants: Rodolphe Thiébaut, Laura Richert.

The ANRS VRI06 first-in-human phase I trial of a novel vaccine concept targeting dendritic cells (here as HIV vaccine) has completed all W48 follow-up visits and results are available 33. We have prepared the designs of subsequent clinical trials of this vaccine candidate as well as of other candidates based on the same platform (HPV vaccine, SARS-COV2 and Pansarbeco vaccines ; Nipah vaccine). This is one of the highlight of the year.

The protocol has been amended with an an additional late boost vaccine adminstration (after W48 since the first injection). Results of the late boost administration will be presented at the CROI conference 2025.

8.3.2 Response to COVID-19 vaccine in immunosupressed populations

Participants: Mélanie Prague, Linda Wittkop.

Linda Wittkop is involved as a principal investigator in the COV-POPART cohort. The cohort was established to study the immune response to Covid-19 vaccination and its persistence in individuals with immune disorders, with a particular focus on characterizing vaccine failures (immunological and virological). A total of 6,112 adults affected by 10 different pathologies are participating in the study. The statistical analysis of the data generated has started.

Loubet et al 34 compared humoral responses to mRNA COVID-19 vaccination between people with HIV (PWH) on ART and HIV-negative individuals. PWH had lower seroneutralization titers and anti-Spike IgG levels than controls at 1 and 6 months post-vaccination, particularly those with CD4 counts <200/mm3. However, after a booster dose, humoral responses at 12 months were comparable between PWH and controls, even in those with initially low CD4 counts.

Chalouni et al 23 found that higher levels of anti-Spike IgG antibodies were associated with a lower risk of SARS-CoV-2 infection in the control group but not in specific populations with chronic diseases. In specific populations, the predictive performance of anti-Spike IgG, anti-RBD IgG, and neutralizing antibodies for SARS-CoV-2 infection was moderate. Overall, vaccine-induced antibody levels after the primary course provided only limited discrimination of SARS-CoV-2 infection risk during the Omicron wave.

This prospective cohort also serves as a use case to assess, from a methodolical perspective, whether routinely collected data (such as those available via the Bordeaux University Hospital data warehouse) could have allowed to address the same scientific questions with a different research design.

8.3.3 Knowledge transfer

Participants: Rodolphe Thiébaut, Laura Richert, Hélène Savel.

We have set-up a transfert unit (BVA, Bordeaux Vaccine Analytics) with Adera, University of Bordeaux, to facilitate the collaborations with private companies. We have continued to develop a data warehouse system based on the Labkey solution where all raw data are organized and that includes meta-data on the design of the clinical trials and is used in international collaborations of facilitate data sharing and exploration (EHVA, EBOVAC, IP-Cure-B and CARE consortia).

9.1.1 Associate Teams in the framework of an Inria International Lab or in the framework of an Inria International Program

Participants: Boris Hejblum.

9.1.2 STIC/MATH/CLIMAT AmSud projects

Participants: Marta Avalos.

• Title:
  Program MATH AmSud 2023, Chile, Uruguay, France (SMILE, code 23-MATH-12)
• Partner Institution(s):
  Universidad de Valparaiso, and Universidad Adolfo Ibáñez, Chile,
• Date/Duration:
  2 years (until Dec 2025)
• Additionnal info/keywords:
  Statistical Modeling, nonparametric Inference, and modeL sElection for complex data

9.1.3 Participation in other International Programs

• RISE
  Rank-Based Identification of Surrogates in Small Ebola Studies (RISE)with Partner Institution(s) UT Austin, USA since June 2024. Award from Dr. Cécile DeWitt-Morette France-UT Endowed Excellence Fund with Layla Parast

Participants: Boris Hejblum.

• MUSICC
  has been selected for funding by CEPI (Coalition for Epidemic Preparedness Innovations). This project, in which SISTM is a partner, will develop and conduct Controlled Human Infection Models For Beta-coronaviruses in order to assess vaccine effects. This project is rather unique in Europe by both the quality of the participants and its approach. In this context, SISTM will contribute to the data analysis and the modeling of the immune response. The project has started on February 1st, 2024. Duration 60 months, 01/02/2024 - 31/01/29. 355,000 USD.

Participants: Rodolphe Thiébaut, Mélanie Prague, Edouard Lhomme.

9.2.1 Visits of international scientists

9.2.2 Visits to international teams

9.3.1 H2020 projects

• SOLVE:

  The project funded by Horizon Europe has started on January 1st, 2024 to decipher the mechanisms of induction of long-lasting immunity through a comparison of vaccine platforms and to advance new vaccine concepts. In the project, SISTM is workpackage leader (WP7 Data Science) and will analyze the consortium's data to model the immune response of the 4 main different types of COVID19 vaccine platforms and some variants. SISTM will thus contribute to the comparison of these platforms and the discussion to present recommendations to stakeholders to support future epidemic preparation decision-making. Duration: 60 months 01/01/24 - 31/12/28. 563 330 Euros.

  Participants: Rodolphe Thiébaut, Mélanie Prague, Linda Wittkop.

• IP-CURE-B:

  Immune profiling to guide host-directed interventions to cure HBV infections. Co-ordinated by Inserm, the project includes a total of 13 Beneficiaries. In this project, SISTM will work on the analysis of data from the clinical intervention and the modelisation of the response to the treatment. L Wittkop. Duration: 60 months 01/01/20-31/12/25. 409,632 Euros.

  Participants: Mélanie Prague, Linda Wittkop, Boris Hejblum.

9.3.2 Other european programs/initiatives

• EBOVAC3:

  Bringing a prophylactic Ebola vaccine to licensure. Coordinated by the London School of Hygiene & Tropical Medicine (United Kingdom). Other beneficiaries: Janssen a Pharmaceutical Companies of Johnson and Johnson, Inserm (France), The University of Antwerpen (Belgium), University of Sierra Leone (Sierra Leone), R. Thiébaut. Duration: 66 months. 01 /06 /2018 - 30 /11/2024. 351,274 Euros.

  Participants: Mélanie Prague, Laura Richert, Boris Hejblum, Rodolphe Thiébaut, Quentin Clairon, Edouard Lhomme.

• PREVAC-UP:

  The Partnership for Research on Ebola VACcinations-extended follow-UP and clinical research capacity build-UP. SISTM is also involved in PREVAC-UP, an EDCTP2 project in direct link with the research carried out on the Ebola vaccines. Coordinated by Inserm (France). Other beneficia- ries: CNFRSR (Guinea), CERFIG (Guinea), LSHTM (UK), COMAHS (Sierra-Leone), NIAID (USA), NPHIL, (Liberia), USTTB (Mali), Centre pour le Développement des Vaccins (Mali), Inserm Transfert SA (France), R. Thiébaut. Duration: 72 months. 01 /01 /2019 - 31 /12 /2024. 328,000 Euros.

  Participants: Mélanie Prague, Laura Richert, Boris Hejblum, Rodolphe Thiébaut, Edouard Lhomme.

• CARE:

  Corona Accelerated R&D in Europe is an IMI2 funded project coordinated by Inserm which gathers 36 globally renowned academic institutions, pharmaceutical companies and non-profit research organisations which have committed to rapidly and efficiently address the COVID-19 emergent heath threat. This major initiative aims at addressing two key objectives: the development of therapeutics to provide an emergency response towards the current COVID-19 pandemic and the development of therapeutics to address the current and/or future coronavirus outbreaks. To address both goals, the CARE consortium has carefully designed a comprehensive research and development (R&D) program around thoughtfully designed Target Product Profiles (TPP) of the urgently needed antiCOVID-19 drugs. This includes small and large molecule discovery and Phase 1 and 2 clinical trials centred around three main pillars: drug repositioning, small-molecule drug discovery, and virus neutralising antibody discovery. These pillars reflect a bifocal strategy where efforts are geared towards (a) a rapid response against current COVID-19 pandemic and (b) a longer-term preparedness strategy against future coronavirus outbreaks. This will maximize the screening landscape of relevant therapeutic avenues and ensure effective therapeutics can be rapidly identified, pre-clinically tested and optimised for clinical-grade manufacturing and clinical testing. In this project, SISTM and EUCLID are working closely together with the support of the CREDIM in the WP5, W7 and WP8 with the respective objectives of providing statistical analysis and data modelling of the immune assays carried out in the project, bring some expert support to the clinical work and develop a LabKey-based platform for the integration and management of the data. Duration: 60 months. 01/04/2020 - 30/03/2025. 1,256,003 Euros.

  Participants: Laura Richert, Boris Hejblum, Rodolphe Thiébaut, Edouard Lhomme.

• ASCENT:

  Acceleration of Novel Coronavirus Serological Test Development and Seroprevalence Study: An African-European Initiative. ASCENT is an EDCTP2 projects involving 7 partners (Inserm, CHUV, EuroVacc, Utrecht University, Centre Muraz, SAMRC and CERFIG) from 6 different countries in Africa and Europe which will aim at assessing the real prevalence of the infection, the projection of the immunity acquired by the populations, and the evaluation of measures aimed to break the transmission in Africa. To do so ASCENT will implement in Burkina Faso, South Africa and Guinea, a novel robust and reproducible luminex-based serological diagnostic test with high throughput, sensitivity, specificity and rapid turn- around time. In this project, SISTM was involved in statistical analysis of the tests data and will lead the WP3 which aims at modelling the epidemics. Duration: 01/05/2020 - 31/01/2024. 37,500 Euros.

  Participants: Laura Richert, Rodolphe Thiébaut, Edouard Lhomme.

• CoVICIS:
  The CoVICIS (EU-Africa Concerted Action on SAR-CoV-2 Virus Variant and Immunological Surveillance) program is proposing a global approach with a powerful state-of-the-art virologic and immunologic platforms coupled with large genomic surveillance studies and diverse cohorts in EU and SSA CoVICIS aims to contribute to the early identification of emerging VOC and address key unanswered questions regarding: i) the susceptibility to infection with VOC after a prior infection in the setting of a long-COVID or after vaccination with different vaccines, ii) the risk posed by VOC in immunocompromised patients, and iii) the modalities of infection and immune responses in children. CoVICIS is coordinated by the CHUV (Switzerland). SISTM is involved in WP7 Data Science and Analysis which aims to utilize cutting edge computational and statistical analysis method to obtain comprehensive assessment of immunogenicity and immune correlates of protection. Coordinated by the CHUV, CoVICIS counts 14 partners amongst which we can find Inserm, UNIMI, UNIGE, and 4 South-African partners. 11/2021-10/2024. Total budget: 10M€, SISTM budget: 110k€.

Participants: Linda Wittkop, Rodolphe Thiébaut.

9.4.1 Various Partnership

Mélanie Prague: Chaire Digital Innovation and Health Data Science program of the Center for Applied Mathematics CMAP at the Ecole Polytechnique

The project team members are involved in:

• F-CRIN (French clinical research infrastructure network), initiated in 2012 by ANR under "Programme des Investissements d'avenir". (L Richert).
• TARPON (Traitement Automatique des Résumés de Passages aux urgences pour un Observatoire National), laureate project from the 2nd Health Data Hub calls for projects, great challenge "Improving medical diagnostics through Artificial Intelligence" and Bpifrance 2020-2022, extended in 2023-2024. (Principal PI E. Lagarde Inserm U1219 in collaboration with University Hospital of Bordeaux. Marta Avalos is listed as a collaborator).
• CESIR IV (Combination of Studies on Health and Road Safety - 4th project) funded by ONISR DSR. (Principal PI E. Lagarde Inserm U1219. Marta Avalos is listed as a collaborator).
• EMERG (Exposome microbien et Risque sanitaire : intérêt d'une Gestion One Health des enjeux liés aux grippes zoonotiques) funded by PSGAR (Programmes Scientifiques de Grande Ambition Régionale). (Principal PI L Delhaes and D Malvy. Marta Avalos is listed as a collaborator).
• Collaboration with Inserm PRC (pôle Recherche clinique).
• Collaboration with Inserm REACTing (REsearch and ACTion targeting emerging infectious diseases) network.
• Collaboration with Inserm RECap (Recherche en Epidémiologie Clinique et en Santé Publique) network.
• STRIVE (Strategies and Treatments for Respiratory and Viral Emergencies Study Payments). International Network for respiratory and viral emergency studies. (Collaborator: Linda Wittkop).

10.1.1 Scientific events: organisation

10.1.2 Scientific events: selection

10.1.3 Journal

10.1.4 Invited talks

Boris Hejblum presented at ISNPS (International Symposium on Nonparametric Statistics) 2024 “Conditional independence testing by comparing empirical conditional cumulative distribution functions” [communication orale dans le cadre d'une session invitée].

Laura Richert gave an invited talk in Epiclin 2024 "Reducing the carbon footprint of clinical trials in France"

Marta Avalos presented at IMS International Conference on Statistics and Data Science (ICSDS), Nice, Dec 2024 51 [communication orale dans le cadre d'une session invitée] and at the 1st SMILE Workshop on Statistical Modeling, Nonparametric Inference, and Model Selection for Complex Data, Valparaiso (Chile), Aug 2024 50.

Melanie Prague was invited in a mini-symposium "Modeling within host" at Society of mathematical biology conference in Seoul 1-7 July 2024. She presented on "Integrating gene expression into mechanistic modeling of the immune system: Application to vaccination against COVID-19".

Rodolphe Thiébaut

• 13th GABRIEL International Meeting, November 27-29, 2024, Les Pensières Center for Global Health, Clinical study design in the context of emerging infectious diseases
• Conferencia virtual inteligencia artificial, salud pública y epidemiología, October 23, Lima, Articifial intelligence, Public Health and Epidemiology
• Small Data Symposium, October 7-8 2024, Freiburg, Integrating gene expression from whole blood into dynamical systems: illustration with a mechanistic model of the antibody response to COVID vaccination
• Journée FLI-CERF aux JFR 2024, 3 Octobre 2024, Paris, Le dépistage, vision transverse de Santé Publique
• Journée de l'Action coordonnée "Modélisation" ANRS/MIE, November 24th, 2023, Paris, How gene expression can inform dynamical models?

10.1.5 Leadership within the scientific community

Mélanie Prague co-leads with J. Guedj the working group Within-Host Modeling, Action Coordonnée Modélisation (ANRS-MIE) since 2021.

Hélène Savel is a board member of the “Biopharmacie et Santé” group of SFdS.

Auriane Gabaut is a board member of the “Jeunes Statisticien.ne.s” group of SFdS.

Laura Richert is co-coordinator of the ""Vaccine working group"" on viral hemorrhagic fevers (ANRS-MIE) and the working group "Greener clinical research" (Décarbonation de la recherche clinique) of the Recap/Inserm network"

Rodolphe Thiébaut is member of the Inserm Scientific committee, member of the Inserm ANRS-MIE scientific Advisory Board

10.1.6 Scientific expertise

Boris Hejblum is a national expert for the 2024 MESSIDORE project call from Inserm IReSP 'Méthodologie des ESSais cliniques Innovants, Dispositifs, Outils et Recherches Exploitant les données de santé et biobanques'.

Boris Hejblum is a member of the ANRS MIE CSS13 ("Clinical research") evaluation committee

Mélanie Prague is a member of the ANR commitee CES45 Interfaces : mathématiques, sciences du numérique – biologie, santé

Rodolphe Thiébaut is a chair of the jury for the recruitement of permanent research at Inria Paris Saclay and a chair of the Inserm scientific committee for the evaluation of the Inserm Units in Paris

Linda Wittkop is a member of

• the CESREES Comité éthique et scientifique pour les recherches, les études et les évaluations dans le domaine de la santé
• the external advisory board of Vaccelerate
• independent committes of clinical trials: ELDORADO and B-Free (President)

Marta Avalos was a member of the INRAE recruitment jury for two research engineer biostatisticians

10.1.7 Research administration

Boris Hejblum is a member of the chairing committee of the Société Française de Biométrie, the French Chapter of the International Biometric Society.

Mélanie Prague is a member of the bureau of Action Coordonnée Modélisation (ANRS-MIE) since 2021.

10.2.1 Teaching

Each faculty member is involved in teaching with approximatively MA 200 h/year, RG 200 h/year, RT 130 h/year, and LW 110 h/year, LR 80 h/year, BH 70 h/year, EL 80 h/year, MP 30 h/year. These activities splits as follow.

• In class teaching
  • Rodolphe Thiébaut is head of the Digital Public Health graduate program, University of Bordeaux. Robin Genuer is head of the M2 Biostatistique, Master of Public Health, University of Bordeaux, Linda Wittkop co-coordinates the M2 Epidemiology, Master of Public Health, University of Bordeaux
  • Master: All the permanent members and several PhD students teaches in the Master of Public Health (M1 Santé publique, M2 Biostatistique and/or M2 Epidemiology) and the Digital Public Health graduate program, University of Bordeaux.
  • Master: Marta Avalos teaches in the Master of Applied Mathematics and Statistics (1st and/or 2nd year), University of Bordeaux.
  • Bachelor: Laura Richert, Linda Wittkop and Edouard Lhomme teach in PASS and DFASM1-3 (Diplôme de Formation Approfondie en Sciences Médicales) for Medical degree at Univ. Bordeaux.
  • Master: Laura Richert and Edouard Lhomme teach in the Master of Vaccinology from basic immunology to social sciences of health (University Paris-Est Créteil, UPEC).
  • Teaching unit coordination: Laura Richert, Linda Wittkop, Rodolphe Thiébaut, Robin Genuer and Boris Hejblum coordinate several teaching units of Master in Public Health (Biostatistics, Epidemiology, Public Health Data-Science).
  • Laura Richert coordinates the teaching unit "critical article reading" (across 4 years of medical school), University of Bordeaux; Edouard Lhomme coordinates the teaching “Evaluation of health innovation (M2 Health innovations); Linda Wittkop coordinates the teaching unit “Public Health and Statistics in Medicine” of the first year of Medical School, University of Bordeaux; Marta Avalos co-coordinates the teaching unit "Statistical analysis of high-dimensional data" (M2 Statistical and stochastic modeling MSS and M2 in Statistical and Computer Engineering CMI ISI of the UFMI of the University of Bordeaux).
  • Boris Hejblum teaches a 4-day graduate course “Bayesian analysis for biomedical research” at the University of Copenhaguen.
  • Boris Hejblum teaches on Statistical learning in high-dimension in M2 Numerical sciences & bio-health, École Centrale Nantes
  • Mélanie Prague teaches "Missing Data" at ENSAI Master Level and M2 Biostat at ISPED
  • ISPED Summer school: Introduction to R (Mélanie Prague), Data science with R (B Hejblum), Introduction to Rcmdr (Marta Avalos), Bayesian Methods for Biomedical Research (B Hejblum), Platform trial (Edouard Lhomme).
  • Quentin Clairon was the organiser and main teacher of the formation: "Inference of mechanistic models in Public Health" within the digital public health graduate program, University of Bordeaux.
• E-learning
  • Marta Avalos is head of the e-learning program of the Master of Public Health, 1st year, University of Bordeaux.
  • Mélanie Prague is responsible of a Module on "regression" in the Diplome Universitaire of statistics in epidemiology.
  • Master: Marta Avalos teaches in the e-learning program of the Master of Public Health (1st and 2nd year).
  • ODL University Course: Robin Genuer is head of the Diplôme universitaire "Méthodes statistiques en santé". Mélanie Prague ans Robin Genuer teach in the Diplôme universitaire "Méthodes statistiques de régression en épidémiologie".
  • ODL University Course: Edouard Lhomme co-coordinates and teaches in the Diplôme universitaire "Recherche Clinique".
  • ODL University project: Robin Genuer participated to the IdEx Bordeaux University "Défi numérique" project BeginR.

10.2.2 Supervision

Supervision of intern students:

• M Prague: Anne Andre Ruiz (ISPED Biostat M2); Tristan Candido da Silva (ISPED M1); Arthur Leroudier (ENSAE, M1); Jay Awale (Institute of technology India L3)
• B Hejblum: Mathéo Le Floch (50% M1 with Cécile Proust-Lima) and Alarig Vigneras (50% M1 with Robin Genuer)
• R Genuer supervised Louis Cazade's internship (Master's Year 1, Comparison of Variable Selection Methods Based on Random Forests), co-supervised Alarig Vigneras's internship with Boris Hejblum (Master's Year 1, Unsupervised Random Forests for Clustering), and co-supervised Alisha Dziarski's internship with Christophe Tzourio (Master's Year 2, A Comparison of Machine Learning Tools to Predict Depression Screen Outcomes: Advantages of a Balanced Training Approach).
• Q Clairon: Hugo Alves, M1 student
• L Richert: Michael Burtin, M2 Univ Claude Bernard Lyon, "Adaptation of Phase I Dose-Finding Clinical Trial Designs to the Context of Vaccinology."
• L Wittkop co-supervised with Jonathan Sterne: Suzie Wang (Master 2 PhDS, Bordeaux) and JiaJie Kang (MSc Epidemiology , University Bristol). She supervised Anderson N’Gattia (M2 Epi, ISPED)
• M Avalos: Ariel Guerra-Adames, M2 Machine Learning and Data Mining at Université Jean Monnet, St Etienne (50% with Emmanuel Lagarde), Chloé Renault, Research and innovation in Food for Health, Institut polytechnique Unilasalle, Beauvais (80% with Laurence Delhaes and Raphaël Enaud)

Supervision of PhD students:

• Boris Hejblum:
  • PhD defense: Benjamin Hivert (co-direction 50%): ”Clustering et analyse différentielle de données d'expression génique”, Sept 2024
  • Arthur Hughes (PhD co-direction 50%): “Approches par groupes de gènes pour le développement de vaccins : association, prédiction et marqueurs de substitution” co-directed with R THiébaut, from Oct 2023.
  • Kalidou Ba (PhD co-direction 50%): ”Reservoir computing for cellular composition prediction from longitudinal transcriptomics data in vaccine trials”, co-directed with Xavier Hinaut (Inria Bordeaux), from Nov 2022.
  • Annesh Pal (PhD co-direction 50%): “Modèles de mélange bayésien pour la déconvolution de proportions cellulaires à partir de données transcriptomiques en masse” co-directed with R THiébaut, from Dec 2023.
  • Sara Fallet Pal (PhD co-direction 50%): “Analyse différentielle par groupes de gènes de données scRNA-seq issues d'échantillons multiples”, co-directed with Pierre Neuvial (Institut Mathématiques de Toulouse, CNRS), from Oct 2024.
• Rodolphe Thiébaut:
  • PhD defense: Iris Ganser, Evaluation of event-based internet biosurveillance for multi-regional detection of seasonal influenza onset, co-directed by David Buckeridge (McGill University) and Rodolphe Thiébaut, Dec 2024.
  • PhD in progress: Thomas Ferté "Contribution of health data warehouses for clinical research and epidemiological surveillance in the context of Covid-19", co-directed by Rodolphe Thiébaut and Vianney Jouhet, from Sept 2022 AHU funding.
  • PhD in progress: Antonin Colajanni, Université de Bordeaux, from Oct 2023, co-direction with Patricia Thebault (Labri), RRI funding.
  • PhD in progress: Annesh Pal, from Oct 2023, INRIA PEPR.
• Mélanie Prague:
  • Auriane GABAUT (50%) from Oct 2023. co-supervision with Cécile Proust-Lima "Utilisation de modèles à variables latentes pour construire des modèles mécanistes en grande dimension : application en immunologie pour le développement de vaccins."
  • unofficial mentoring of Iris ganser (see R. Thiébaut directions)
  • Adrien MITARD (50%) from Oct 2023. Co supervision with Jérémie Guedh IAME Inserm Paris. "Modélisation intra-hote de la reponse vaccinale".
• Quentin Clairon:
  • Zhe Aurore Li (50%), first year PhD student. Mechanistic modeling using machine learning.
• Robin Genuer:
  • Justine REMIAT (1st year PhD started in 10/2023) "Development of distance-based random forests methods for complex data analysis", co-supervision with Cécile Proust-Lima
  • Corentin SEGALAS (Post-doc started in 02/2023), "Random forests for longitudinal data irregularly measured" co-supervision with Cécile Proust-Lima
• Laura Richert:
  • PhD in progress: Cyrille Kone “Bandit algorithms for early phase clinical trials in vaccinology”, codirected by Emilie Kaufmann (Inria Scool) and Laura Richert from November 2022.
  • PhD in progress: Nam-Anh Tran (co-tutelle with McGill), 2024-2027, "Bayesian adaptive vaccine trials".
• Marta Avalos:
  • Ariel Guerra-Adames (1st year PhD started in Sept 2024) "Judgment biases in clinical decision-making during emergency triage and emergency medical dispatching: a quantitative and qualitative public health approach using large language models", co-supervision with Emmanuel Lagarde
• Linda Wittkop:
  • Adam Loffler, MD thesis "Utiliser un entrepôt de données de santé pour reproduire les résultats d'une cohorte vaccinale COVID-19 chez des patients atteints d'hypogammaglobulinémie".
• Edouard Lhomme :
  • Co supervized (50%) with Linda Wittkop Daniela Gouna "Modélisation et analyse des déterminants de l'immunogénicité et de la tolérance post-vaccination, à partir d'études cliniques vaccinales."

10.2.3 Juries

• Boris Hejblum
  • Jury PhD defense:Toggle sub-subsection view
    • Nicolas Enjalbert-Courrech, thesis examiner, IMT Toulouse, “Inférence post-sélection pour l'analyse des données transcriptomiques”, Dec 2024
  • PhD Follow-up:Toggle sub-subsection view
    • Manel Rakez (2021 - 2025 ; directors Virginie Rondeau and Brice Amadeo — Université de Bordeaux), “Modélisation du dépistage du cancer du sein et son impact sur la réduction de la mortalité : Amélioration avec la modélisation conjointe et les réseaux de neurones profonds”
    • Lucie Fontaine (2023 - 2026; director Frédérique Alexandre — Université de Bordeaux), “Modèles génératifs bio-inspirés pour l'IA”
    • Catalina Gonzales-Gomez (2022-2025; director Manuel Rosa-calatrava — Université de Lyon 1), “Développement d’outils in silico pour le repositionnement pharmaceutique de molécules basés sur des données d'expression omics et la notion de connectivité”
    • Gustavo Magana-Lopez (2023-2025; director Loïc Paulevé — Université de Bordeaux). “Synthèse et apprentissage d'ensembles de réseaux booléens prédictifs pour la reprogrammation cellulaire”
• Rodolphe Thiébaut was a member of PhD defense committees for Patrick Saux and Sophia Yazzourh.
• Robin Genuer was reviewer of the PhD thesis of Juliette Murris (defended the 18/10/2024 at Univ. Paris Cité), and of the PhD thesis of Van Tuan Nguyen (defended the 12/12/2024 at Univ. Paris Cité).
• Laura Richert
  • PhD defense committees: Benjamin Duputel (Univ Paris Cité)
  • HDR defense committee: Nathalie De Castro (Univ Bordeaux)
  • PhD Follow-up: Vincent BOuteloup (Univ Bordeaux), Clément Massonaud (Paris Cité), Guillaume Mulier (Paris Cité)
• Melanie Prague :
  • was examiner of the PhD of Marion Naveau INRAE paris on "Procédures de sélection de variables en grande dimension dans les modèles non-linéaires à effets mixtes. Application en amélioration des plantes."
  • She is part of PhD follow-up of comittee of, Ilona Suhanda (Sorbonne université), Benjamin Glemain (inserm iPLesp Paris) and Maxime Beaulieu (Inserm IAME)
• Linda Wittkop
  • Jury PhD Follow-up: Sandrine DOMECQ "Analyse des trajectoires de soins : définition d'un cadre méthodologique et application au parcours des patients victimes d'un accident vasculaire cérébral" Supervisor Florence Saillour, Igor Sibon
• Marta Avalos
  • International PhD Follow-up: John Erick Barrera Perez, Doctorado En Matematica, from 2023, 'New developments in the estimation of statistical models for complex longitudinal data', University of Valparaiso (Chile).
  • Dylan Russon, “Vers des Urgences humaines et digitales : construction d'un outil de modélisation des flux et des processus pour l'exploration et la validation des initiatives innovantes”, Université de Bordeaux, from 2023
  • Academic tutor of PhD student S. Zaïd, Ecole doctorale Sociétés, Politique, Santé Publique de l'Université de Bordeaux- EDSP2.

10.3.1 Specific official responsibilities in science outreach structures

M Avalos is a member of the Administrative Council (Research Division) of the competitiveness cluster ENTER (Digital Excellence in Service of Environmental and Responsible Transitions) and a member of the Labeling Committee

10.3.2 Participation in Live events

• B Hejblum and L Wittkop participated to the Nuit des chercheurs 2024 by animating the Inserm exhibition “Des virus émergents et des épidémies”.
• B Hejblum participates yearly to the “Chiche! 1 Scientifique, 1 Classe” high-school program.

10.3.3 Others science outreach relevant activities

The Teamwork Art in Public Health: a Qualitative Study, presented in the ENLIGHT Teaching and Learning Conference 2024 - Innovation and Creativity in Higher Education, Oct 2024 65

Transmettre l'art de faire équipe à nos étudiants en Santé Publique : Retour d'expérience sur l'alignement pédagogique, presented in the ETES 2024 - Enseigner les Transitions Écologiques et Sociales dans le Supérieur, Jul 2024 66

Optimisation des services des urgences hospitalières à l'aide de l'IA : une opportunité incontournable et un risque de systématisation des disparités de santé, presented by Ariel Guerra-Adames 67 and Prédiction de l'épidémie de SARS-CoV-2 : Reservoir Computing appliqué à plus de 400 variables, presented by Thomas Ferté in Dataquitaine, March, 2024

Laura Richert presented a webinaire "Développement durable et essais cliniques, Leem F-CRIN, CNCR" and presented at Colloque Bdx Ecologie et Santé "INNOVATIONS, RECHERCHE : toutes nos énergies au service de la TRANSFORMATION ÉCOLOGIQUE !"

Melanie Prague participated to NUMIN with an article on "Préparation aux épidémies : le pouvoir de la science des données". She has contributed to a paper in "Tangente Hors-série n°86. Nouveaux défis de la statistique" on "La medecine du futur".

Mélanie Prague and Rodolphe Thiébaut has publication in press: Sud-Ouest 06/02/2024 "Covid-19 une étude met en lumière les milliers de vies sauvées par les confinements et la vaccination", L'express 07/02/2024 "Covid-19 le confinement et les vaccins ont-ils été efficaces ce que révèle une étude", Le monde 08/02/2024 "Covid-19 sans la vaccination le nombre de morts aurait été le double en France", La Dépêche 09/02/2024 "Covid-19, les données prédisent 159000 décès supplémentaires une étude mesure l'impact du confinement et du vaccin en France.

International journals

• 16 articleM.Marie Alexandre, M.Mélanie Prague, E.Edouard Lhomme, J.-D.Jean-Daniel Lelièvre, L.Linda Wittkop, L.Laura Richert, Y.Yves Lévy and R.Rodolphe Thiébaut. Definition of Virological Endpoints Improving the Design of HIV Cure Strategies Using Analytical Antiretroviral Treatment Interruption.Clinical Infectious Diseases796May 2024, 1447-1457HALDOIback to text
• 17 articleJ.Julie Ambia, S. M.Suzanne M Ingle, K.Kathleen Mcginnis, N.Nikos Pantazis, M. J.Michael J Silverberg, L.Linda Wittkop, K.Katharina Kusejko, H.Heidi Crane, A.Ard van Sighem, M.Mario Sarcletti, A.Alessandro Cozzi-Lepri, P.Pere Domingo, I.Inma Jarrin, C.Christoph Wyen, M.Mojgan Hessamfar, L.Lei Zhang, M.Matthias Cavassini, J.Juan Berenguer, T. R.Timothy R Sterling, P.Peter Reiss, S.Sophie Abgrall, M. J.M John Gill, A.Amy Justice, J. a.Jonathan a C Sterne and A.Adam Trickey. Discrimination of the Veterans Aging Cohort Study Index 2.0 for Predicting Cause-specific Mortality Among Persons With HIV in Europe and North America.Open Forum Infectious Diseases117July 2024, ofae333HALDOI
• 18 articleM.Marie Ballif, D.Dominique Braun, A.Alexandra Calmy, E.Enos Bernasconi, M.Matthias Cavassini, F.Frédéric Tissot, M.Marcel Stoeckle, P.Patrick Schmid, C. A.Christoph A Fux, M.Marc van der Valk, K.Kees Brinkman, T.Tania Mudrikova, F.Fabrice Bonnet, O.Olivier Leleux, M.Manuela Saúde, D.Daniela Hirter, N.Nathalie Schwab, A.Andreas Limacher, F.Felix Rintelen, R.Roger Kouyos, D.David Haerry, S. C.Sofia C Zambrano, M.Martina Egloff, C.Christina Akre, I.Isabelle Peytremann-Bridevaux, A.Andri Rauch, G.Gilles Wandeler and B.Bernard Surial. Booster-free anti-retroviral therapy for persons living with HIV and multidrug resistance (B-Free): protocol for a multicentre, multistage, randomised, controlled, non-inferiority trial.BMJ Open1411November 2024, e094912HALDOI
• 19 articleH.Houreratou Barry, E.Edouard Lhomme, M.Mathieu Surenaud, M.Moumini Nouctara, C.Cynthia Robinson, V.Viki Bockstal, I.Innocent Valea, S.Serge Somda, H.Halidou Tinto, N.Nicolas Meda, B.Brian Greenwood, R.Rodolphe Thiébaut and C.Christine Lacabaratz. Helminth exposure and immune response to the two-dose heterologous Ad26.ZEBOV, MVA-BN-Filo Ebola vaccine regimen.PLoS Neglected Tropical Diseases184April 2024, e0011500HALDOIback to text
• 20 articleJ.Jihane Ben Farhat, M.Mojgan Hessamfar, D.Didier Neau, S.Sophie Farbos, E.Estibaliz Lazaro, P.Pierre Duffau, N.Nicolas Rouanes, C.Charles Cazanave, T.Thierry Pistone, P.Patrick Rispal, M.-A.Marie-Anne Vandenhende, C.Camille Krzyzanowsky, O.Olivier Leleux, L.Linda Wittkop, F.Fabrice Bonnet and D.Diana Barger. Exposure to COVID-19 Pandemic-Related Stressors and Their Association With Distress, Psychological Growth and Drug Use in People With HIV in Nouvelle Aquitaine, France (ANRS CO3 AQUIVIH-NA Cohort-QuAliV-QuAliCOV Study).AIDS and BehaviorJanuary 2025HALDOI
• 21 articleF.Florie Bouvier, E.Etienne Peyrot, A.Alan Balendran, C.Corentin Ségalas, I.Ian Roberts, F.François Petit and R.Raphaël Porcher. Do machine learning methods lead to similar individualized treatment rules? A comparison study on real data.Statistics in Medicine4311March 2024, 2043-2061HALDOI
• 22 articleL.Louis Capitaine, J.Jérémie Bigot, R.Rodolphe Thiébaut and R.Robin Genuer. Fréchet random forests for metric space valued regression with non Euclidean predictors.Journal of Machine Learning Research253552024, 1-41HALback to textback to text
• 23 articleM.Mathieu Chalouni, P.Paul Loubet, E.Edouard Lhomme, L.Laetitia Ninove, B.Benoit Barrou, J. Y.Jean Yves Blay, M.Maryvonne Hourmant, J.Jérome de Seze, M.Martine Laville, B.Bruno Laviolle, J. D.Jean Daniel Lelièvre, J.Jacques Morel, S. N.Stéphanie Nguyen Quoc, J. P.Jean Philippe Spano, B.Benjamin Terrier, A.Anne Thiebaut, J. F.Jean Francois Viallard, F.François Vrtovsnik, S.Sophie Circosta, A.Aude Barquin, M.Mariam Gharib, E.Eric Tartour, B.Béatrice Parfait, R.Rodolphe Thiébaut, L.Laurence Meyer, X.Xavier de Lamballerie, O.Odile Launay and L.Linda Wittkop. Association between humoral serological markers levels and risk of SARS-CoV-2 infection after the primary COVID-19 vaccine course among ANRS0001S COV-POPART cohort participants.BMC Infectious Diseases241September 2024, 1049HALDOIback to text
• 24 articleF.Federico Di Meglio, E.Edouard Lhomme, H. G.Henri Gautier Ouedraogo, A. M.Alpha Mahmoud Barry, S.Seydou Doumbia, S. L.Sylvain Landry Faye, A. K.Abdul Karim Mbawah, T.Tani Sagna, M.Moctar Tounkara, R.Ricardo Strauss, C. O.Cheick Oumar Doumbia, S.Souleymane Diouf, K.Kadari Cissé, J.Jürgen May, D. I.Dewi Ismajani Puradiredja and D.Daniela Fusco. Variations in COVID-19 vaccine hesitancy over time: a serial cross-sectional study in five West African countries.BMJ Open1411November 2024, e083766HALDOI
• 25 articleO.Océane Dorémus, D.Dylan Russon, B.Benjamin Contrand, A.Ariel Guerra-Adames, M.Marta Avalos-Fernandez, C.Cédric Gil-Jardiné and E.Emmanuel Lagarde. Harnessing Moderate-Sized Language Models for Reliable Patient Data De-identification in Emergency Department Records: An Evaluation of Strategies and Performance.JMIR AI2024. In press. HALDOI
• 26 articleI.Iris Ganser, D. L.David L Buckeridge, J.Jane Heffernan, M.Mélanie Prague and R.Rodolphe Thiébaut. Estimating the population effectiveness of interventions against COVID-19 in France: A modelling study.Epidemics46March 2024, 100744HALDOIback to textback to textback to text
• 27 articleA.Ariel Guerra Adames, M.Marta Avalos, O.Océane Dorémus, C.Cédric Gil-Jardiné and E.Emmanuel Lagarde. Uncovering Judgment Biases in Emergency Triage: A Public Health Approach Based on Large Language Models.Proceedings of Machine Learning Research2024. In press. HALback to textback to text
• 28 articleB.Boris Hejblum, K.Kalidou Ba, R.Rodolphe Thiébaut and D.Denis Agniel. Neglecting normalization impact in semi-synthetic RNA-seq data simulation generates artificial false positives.Genome Biology251October 2024, 281HALDOI
• 29 articleM.Maxime Hentzien, F.Fabrice Bonnet, E.Enos Bernasconi, E.Emmanuel Biver, D. L.Dominique L. Braun, A.Aline Munting, K.Karoline Leuzinger, O.Olivier Leleux, S.Stefano Musardo, V.Virginie Prendki, P.Patrick Schmid, C.Cornelia Staehelin, M.Marcel Stoeckle, C. S.Carla S. Walti, L.Linda Wittkop, V.Victor Appay, A. M.Arnaud M. Didierlaurent and A.Alexandra Calmy. Immune response to the recombinant herpes zoster vaccine in people living with HIV over 50 years of age compared to non-HIV age-/gender-matched controls (SHINGR'HIV): a multicenter, international, non-randomized clinical trial study protocol.BMC Infectious Diseases2412024, 329HALDOI
• 30 articleB.Benjamin Hivert, D.Denis Agniel, R.Rodolphe Thiébaut and B. P.Boris P. Hejblum. Post-clustering difference testing: valid inference and practical considerations.Computational Statistics and Data Analysis1932024, 107916HALDOIback to text
• 31 articleT.Timothée Klopfenstein, S.Souheil Zayet, S.Samantha Poloni, V.Vincent Gendrin, D.Damien Fournier, J.-B.Jean-Baptiste Vuillemenot, P.Philippe Selles, A.Alain Dussaucy, G.Gaelle Coureau, M. F.Marta Fernandez Avalos, L.Lynda Toko, P.-Y.Pierre-Yves Royer, C.-E.Charles-Eric Lavoignet, B.Bouchra Amari, M.Marc Puyraveau and C.Catherine Chirouze. CRP under 130 mg/L rules out the diagnosis of Legionella pneumophila serogroup 1 (URINELLA Study).European Journal of Clinical Microbiology and Infectious Diseases2024. In press. HALDOI
• 32 articleC.Christine Lacabaratz, M.Melany Durand, A.Aurelie Wiedemann, E.Emile Foucat, M.Mathieu Surenaud, C.Corinne Krief, L.Lydia Guillaumat, C.Cynthia Robinson, K.Kerstin Luhn, V.Viki Bockstal, R.Rodolphe Thiebaut, L.Laura Richert and Y.Yves Levy. Innate and cellular immune response to the Ebola vaccine Ad26.ZEBOV, MVA-BN-Filo: an ancillary study of the EBL2001 phase II trial.Journal of Infectious DiseasesJuly 2024, jiae360HALDOIback to text
• 33 articleY.Yves Lévy, Y.Yves Lévy, C.Christiane Moog, C.Christiane Moog, A.Aurélie Wiedemann, A.Aurélie Wiedemann, O.Odile Launay, O.Odile Launay, F.Fabio Candotti, F.Fabio Candotti, L.Lucile Hardel, L.Lucile Hardel, M.Mélany Durand, M.Mélany Durand, V.Véronique Rieux, V.Véronique Rieux, A.Alpha Diallo, A.Alpha Diallo, C.Christine Lacabaratz, C.Christine Lacabaratz, S.Sylvain Cardinaud, S.Sandra Zurawski, G.Gerard Zurawski, G.Georgia Tomaras, S.Song Ding, S.Song Ding, M.Mireille Centlivre, M.Mireille Centlivre, R.Rodolphe Thiébaut, R.Rodolphe Thiébaut, G.Giuseppe Pantaleo, G.Giuseppe Pantaleo, J.-D.Jean-Daniel Lelièvre, J.-D.Jean-Daniel Lelièvre, L.Laura Richert, L.Laura Richert, M.Mathilde Desvallées, L.Laurent Hanot, H.Hakim Hocini, L.Léa Levoyer, S.Stéphane Paul, L.Laure Surgers, J.-P.Jean-Paul Viard, F.Frédéric Batteux, S.Sophie Grabar, H.Hélène Pollard, M.Mathilde Desvallées, M.Marie Lachatre, N.Noémie Mercier, L.Laura Molinari, L.Loretxu Pinoges, A.Anaïs Boston, V.Valérie Boilet, C.Cécilia Campion, S.Solenne Delahaye, M.Mohamed Dembélé, Q.Quentin Guillochon, Y.Youssra Khalil, A.-A.Anne-Aygline Soutthiphong, L.Ludivine Taïeb, L.Linda Wittkop, E.Emile Foucat, C.Corinne Krief, A.Alexandre Ribeiro, C.Cécile Rodrigues, T.Thomas Decoville, G.Géraldine Laumond, L.-Y.Li-Yun Li, S.Sylvie Schmidt, C.Craig Fenwick, T.Tapia Gonzalo, P.Philippe Kiehl, R.Raida Ben Rayana, M.Magali Bouvier, H.Harouna Diombera, H.Hanane Mehawej, M.Muriel Verlinde-Carvalho, M.Marta Zatta, M. A.Motolete Alaba Tanah, K.Kahina Cheref, A.Aurélie Durel-Maurisse, M.Mathilde Favreau, P.Pascal Grange, C.Corinne Guerin, L. B.Liem Binh Luong, B.Béatrice Parfait, V.Vanessa Christinet, R.Rosemary Hottinger, I.Isabelle Sommer, F.Francesco Tommasini, A.Aline Voidey and A.Andres Salazar. Safety and immunogenicity of CD40.HIVRI.Env, a dendritic cell-based HIV vaccine, in healthy HIV-uninfected adults: a first-in-human randomized, placebo-controlled, dose-escalation study (ANRS VRI06).EClinicalMedicine778November 2024, 102845HALDOIback to textback to text
• 34 articleP.Paul Loubet, J.-D.Jean-Daniel Lelievre, A.Alexis Francois, E.Elisabeth Botelho-Nevers, C.Christian Chidiac, D.David Chirio, V.Vincent Dubee, B.Bertrand Dussol, F.Florence Galtier, M.Mojgan Hessamfar, E.Enkelejda Hodaj, S.Sylvain Jaffuel, K.Karine Lacombe, F.Fabrice Laine, M.Maeva Lefebvre, Z.Zoha Maakaroun-Vermesse, A.Alain Makinson, A.Aurelie Portefaix, V.Valerie Pourcher, D.David Rey, D.David Zucman, J.Julie Longobardi, M.Mathilde Bertheau, E.Eric Tartour, X.Xavier de Lamballerie, O.Odile Launay and L.Linda Wittkop. Humoral response after mRNA COVID-19 primary vaccination and single booster dose in people living with HIV compared to controls: a French nationwide multicenter cohort study - ANRS0001s COV-POPART.International Journal of Infectious Diseases146May 2024, 107110HALDOIback to text
• 35 articleA. M.Anthony Muchai Manyara, P.Philippa Davies, D.Derek Stewart, C.Christopher Weir, A.Amber Young, J.Jane Blazeby, N.Nancy Butcher, S.Sylwia Bujkiewicz, A.-W.An-Wen Chan, D.Dalia Dawoud, M.Martin Offringa, M.Mario Ouwens, A.Asbjørn Hróbjartsson, A.Alain Amstutz, L.Luca Bertolaccini, V. D.Vito Domenico Bruno, D.Declan Devane, C.Christina Faria, P.Peter Gilbert, R.Ray Harris, M.Marissa Lassere, L.Lucio Marinelli, S.Sarah Markham, J.John Powers, Y.Yousef Rezaei, L.Laura Richert, F.Falk Schwendicke, L.Larisa Tereshchenko, A.Achilles Thoma, A.Alparslan Turan, A.Andrew Worrall, R.Robin Christensen, G.Gary Collins, J.Joseph Ross, R.Rod Taylor and O.Oriana Ciani. Reporting of surrogate endpoints in randomised controlled trial protocols (SPIRIT-Surrogate): extension checklist with explanation and elaboration.BMJ - British Medical Journal3861July 2024, e078525HALDOI
• 36 articleA. M.Anthony Muchai Manyara, P.Philippa Davies, D.Derek Stewart, C. J.Christopher J Weir, A. E.Amber E Young, J.Jane Blazeby, N. J.Nancy J Butcher, S.Sylwia Bujkiewicz, A.-W.An-Wen Chan, D.Dalia Dawoud, M.Martin Offringa, M.Mario Ouwens, A.Asbjorn Hrobjartssson, A.Alain Amstutz, L.Luca Bertolaccini, V. D.Vito Domenico Bruno, D.Declan Devane, C. D.Christina D C M Faria, P. B.Peter B Gilbert, R.Ray Harris, M.Marissa Lassere, L.Lucio Marinelli, S.Sarah Markham, J. H.John H Powers, Y.Yousef Rezaei, L.Laura Richert, F.Falk Schwendicke, L. G.Larisa G Tereshchenko, A.Achilles Thoma, A.Alparslan Turan, A.Andrew Worrall, R.Robin Christensen, G. S.Gary S Collins, J. S.Joseph S Ross, R. S.Rod S Taylor and O.Oriana Ciani. Reporting of surrogate endpoints in randomised controlled trial reports (CONSORT-Surrogate): extension checklist with explanation and elaboration.BMJ386July 2024, e078524HALDOI
• 37 articleM.Marta Nunes, E.Edward Thommes, H.Holger Fröhlich, A.Antoine Flahault, J.Julien Arino, M.Marc Baguelin, M.Matthew Biggerstaff, G.Gaston Bizel-Bizellot, R.Rebecca Borchering, G.Giacomo Cacciapaglia, S.Simon Cauchemez, A.Alex Barbier--Chebbah, C.Carsten Claussen, C.Christine Choirat, M.Monica Cojocaru, C.Catherine Commaille-Chapus, C.Chitin Hon, J.Jude Kong, N.Nicolas Lambert, K.Katharina Lauer, T.Thorsten Lehr, C.Cédric Mahe, V.Vincent Marechal, A.Adel Mebarki, S.Seyed Moghadas, R.Rene Niehus, L.Lulla Opatowski, F.Francesco Parino, G.Gery Pruvost, A.Andreas Schuppert, R.Rodolphe Thiébaut, A.Andrea Thomas-Bachli, C.Cecile Viboud, J.Jianhong Wu, P.Pascal Crepey and L.Laurent Coudeville. Redefining pandemic preparedness: Multidisciplinary insights from the CERP modelling workshop in infectious diseases, workshop report.Infectious Disease Modelling92June 2024, 501-518HALDOI
• 38 articleY.Yadira Pastor, O.Olivier Reynard, M.Mathieu Iampietro, M.Mathieu Surenaud, F.Florence Picard, N.Nora El Jahrani, C.Cecile Lefebvre, A.Adele Hammoudi, L.Lea Dupaty, E.Elise Brisebard, S.Stephanie Reynard, E.Elodie Moureaux, M.Marie Moroso, S.Stephanie Durand, C.Claudia Gonzalez, L.Lucia Amurri, A.-S.Anne-Sophie Gallouet, R.Romain Marlin, S.Sylvain Baize, E.Eve Chevillard, H.Herve Raoul, H.Hakim Hocini, M.Mireille Centlivre, R.Rodolphe Thiébaut, B.Branka Horvat, V.Veronique Godot, Y.Yves Levy and S.Sylvain Cardinaud. A vaccine targeting antigen-presenting cells through CD40 induces protective immunity against Nipah disease.Cell Reports Medicine53March 2024, 101467HALDOI
• 39 articleM.-B.Maria-Bernarda Requena, C.Camelia Protopopescu, A. C.Ashleigh C Stewart, D. K.Daniela K van Santen, M. B.Marina B Klein, I.Inmaculada Jarrin, J.Juan Berenguer, L.Linda Wittkop, D.Dominique Salmon, A.Andri Rauch, M.Maria Prins, M.Marc van der Valk, R.Rachel Sacks-Davis, M. E.Margaret E Hellard, P.Patrizia Carrieri and K.Karine Lacombe. All-cause mortality before and after DAA availability among people living with HIV and HCV: An international comparison between 2010 and 2019.International Journal of Drug Policy124January 2024, 104311HALDOI
• 40 articleR.Rachel Sacks-Davis, D. K.Daniela K van Santen, A.Anders Boyd, J.Jim Young, A.Ashleigh Stewart, J. S.Joseph S Doyle, A.Andri Rauch, C.Catrina Mugglin, M.Marina Klein, M.Marc van der Valk, C.Colette Smit, I.Inmaculada Jarrin, J.Juan Berenguer, K.Karine Lacombe, M.-B.Maria-Bernarda Requena, L.Linda Wittkop, O.Olivier Leleux, F.Fabrice Bonnet, D.Dominique Salmon, G. V.Gail V Matthews, R.Rebecca Guy, N. K.Natasha K Martin, T.Tim Spelman, M.Maria Prins, M.Mark Stoove and M.Margaret Hellard. Changes in incidence of hepatitis C virus reinfection and access to direct-acting antiviral therapies in people with HIV from six countries, 2010-19: an analysis of data from a consortium of prospective cohort studies.Lancet HIV112January 2024, e106-e116HALDOI
• 41 articleD. K.Daniela K van Santen, A.Ashleigh Stewart, J. S.Joseph S Doyle, M. A.Mark A Stoove, J.Jason Asselin, M. B.Marina B Klein, J.Jim Young, J.Juan Berenguer, I.Inmaculada Jarrin, K.Karine Lacombe, L.Linda Wittkop, O.Olivier Leleux, D.Dominique Salmon, F.Fabrice Bonnet, A.Andri Rauch, C.Catrina Mugglin, G.Gail Matthews, M.Maria Prins, C.Colette Smit, A.Anders Boyd, M.Marc van der Valk, R.Rachel Sacks-Davis and M. E.Margaret E Hellard. Cohort Profile: International Collaboration on Hepatitis C Elimination in HIV Cohorts (InCHEHC).International Journal of Epidemiology531February 2024HALDOI
• 42 articleH.Hélène Savel, F.Florence Meyer-Losic, C.Cécile Proust-Lima and L.Laura Richert. Statistical classification of treatment responses in mouse clinical trials for stratified medicine in oncology drug discovery.Scientific Reports141January 2024, 934HALDOI
• 43 articleC.Corentin Ségalas, C.Catherine Helmer, R.Robin Genuer and C.Cécile Proust-Lima. Functional Principal Component Analysis as an Alternative to Mixed‐Effect Models for Describing Sparse Repeated Measures in Presence of Missing Data.Statistics in MedicineSeptember 2024HALDOIback to textback to text
• 44 articleR.Rodolphe Thiébaut, B. P.Boris P. Hejblum, F.Fleur Mougin, C.Christophe Tzourio and L.Laura Richert. ChatGPT and beyond with artificial intelligence (AI) in health: Lessons to be learned.Revue du Rhumatisme911January 2024, 12-15HALDOIback to text
• 45 articleA.Adam Trickey, R.Robert Glaubius, N.Nikos Pantazis, R.Robert Zangerle, L.Linda Wittkop, J.Janne Vehreschild, S.Sophie Grabar, M.Matthias Cavassini, R.Ramon Teira, A.Antonella d'Arminio Monforte, J.Jordi Casabona, A.Ard van Sighem, I.Inma Jarrin, S. M.Suzanne M Ingle, J. a.Jonathan a C Sterne, J. W.Jeffrey W Imai-Eaton and L. F.Leigh F Johnson. Estimation of Improvements in Mortality in Spectrum Among Adults With HIV Receiving Antiretroviral Therapy in High-Income Countries.Journal of Acquired Immune Deficiency Syndromes - JAIDS951SJanuary 2024, e89-e96HALDOI
• 46 articleS.Simon Valayer, M.Marie Alexandre, M.Mélanie Prague, A. H.Abdoul Habib Beavogui, S.Seydou Doumbia, M.Mark Kieh, B.Brian Greenwood, B.Bailah Leigh, M.Marie Poupelin, C.Christine Schwimmer, S.Samba Sow, I. M.Irina Maljkovic Berry, J.Jens Kuhn, D.Daniela Fusco, N. D.Natasha Dubois Cauwelaert, D.Deborah Watson-Jones, R.Rodolphe Thiébaut, Y.Yves Lévy, Y.Yazdan Yazdanpanah, L.Laura Richert and E.Edouard Lhomme. Evaluation of waning of IgG antibody responses after rVSVΔG-ZEBOV-GP and Ad26.ZEBOV, MVA-BN-Filo Ebola virus disease vaccines: a modelling study from the PREVAC randomized trial.Emerging microbes & infectionsNovember 2024, Online ahead of printHALDOIback to text
• 47 articleL.Leonie Weskamm, P.Paulina Tarnow, C.Charlotte Harms, M.Melanie Huchon, M.Matthijs Raadsen, M.Monika Friedrich, L.Laura Rübenacker, C.Cordula Grüttner, M.Mariana Garcia, T.Till Koch, S.Stephan Becker, G.Gerd Sutter, E.Edouard Lhomme, B.Bart Haagmans, A.Anahita Fathi, S.Sandra Blois, C.Christine Dahlke, L.Laura Richert and M.Marylyn Addo. Dissecting humoral immune responses to an MVA-vectored MERS-CoV vaccine in humans using a systems serology approach.iScience278August 2024, 110470HALDOI
• 48 articleE.Eoghann White, L.Laura Papagno, A.Assia Samri, K.Kenji Sugata, B. P.Boris P. Hejblum, A. R.Amy R Henry, D. C.Daniel C Rogan, S.Samuel Darko, P.Patricia Recordon-Pinson, Y.Yasmine Dudoit, S.Sian Llewellyn-Lacey, L. A.Lisa A Chakrabarti, F.Florence Buseyne, S. A.Stephen A Migueles, D. A.David A Price, M.-A.Marie-Aline Andreola, Y.Yorifumi Satou, R.Rodolphe Thiébaut, C.Christine Katlama, B.Brigitte Autran, D. C.Daniel C Douek and V.Victor Appay. Clonal succession after prolonged antiretroviral therapy rejuvenates CD8⁺ T cell responses against HIV-1.Nature Immunology259September 2024, 1555-1564HALDOI
• 49 articleA.Aurélie Wiedemann, E.Edouard Lhomme, M.Mélanie Huchon, E.Emile Foucat, M.Marion Bérerd-Camara, L.Lydia Guillaumat, M.Marcel Yaradouno, J.Jacqueline Tambalou, C.Cécile Rodrigues, A.Alexandre Ribeiro, A. H.Abdoul Habib Béavogui, C.Christine Lacabaratz, R.Rodolphe Thiébaut, L.Laura Richert, Y.Yves Lévy, J.Jamila Aboulhab, M.Michelle Aguirre-Mackenzie, P.Pauline Akoo, E.Esther Akpa, R.Robert Akpata, S.Sara Albert, B. M.Boni Maxime Ale, S.Serry Alimamy-Bangura, P.Pierre Andong, B.Benetta Andrews, S.Stephane Anoma, N.Negin Atri, A.Augustin Augier, K.Ken Awuondo, A.Ahidjo Ayouba, M.Moses Badio, A.Aminata Bagayoko, A.Abby Balde, J.Joséphine Balssa, L. M.Lamin Molecule Bangura, K.Kesha Barrington, E. B.Eric Barte de Saint Fare, B.Beth Baseler, A.Ali Bauder, C.Claire Bauduin, L.Luke Bawo, A. H.Abdoul Habib Beavogui, M.Michael Belson, S.Safaa Ben-Farhat, M.Marion Bererd, N.Nicolas Bernaud, T.Teedoh Beyslow, N.Neirade Biai, J.Jeanne Billioux, S.Shere Billouin-Frazier, B.Blandine Binachon, J.Julie Blie, V.Viki Bockstal, P.Patricia Boison, F.Fatorma Bolay, A.Aliou Boly, R. E.Rachael Elizabeth Bonawitz, A.-G.Anne-Gaëlle Borg, S.Samuel Bosompem, C.Courtney Bozman, T.Tyler Brady, S.Sarah Browne, R.Ryan Bullis, B.Barbara Cagniard, K.Kelly Cahill, Y.Yingyun Cai, A. A.Aissata Abdoulaye Camara, A. K.Aboubacar Keira Camara, A. M.Alseny Modet Camara, A.Antoine Campagne, C.Cécilia Campion, A.Alexandre Cantan, J.Jennifer Cash, S. P.Siew Pin Chai, F.Francois Chambelin, M.Michael Chea, G.Geneviève Chêne, E.Edouard Choi, M.Michelle Chouinard, F.Florence Chung, L.Lucy Chung, S.Séverine Ciancia, P. N.Papa Ndiaga Cisse, E.Elfrida Cline-Cole, C.Céline Colin, B.-A.Beth-Ann Coller, D. S.Djélikan Siaka Conde, K.Katherine Cone, L.Laurie Connor, N.Nicholas Connor, J. B.Joseph Boye Cooper, S.Sandrine Couffin-Cardiergues, F.Fatoumata Coulibaly, M.Mariam Coulibaly, P.Page Crew, S.Sandrine Dabakuyo-Yonli, D.Djeneba Dabitao, T.Thierry Damerval, B.Bionca Davis, G. F.Gibrilla Fadlu Deen, E.Eline Dekeyster, J.-F.Jean-François Delfraissy, C.Christelle Delmas, M.Mahamadou Diakite, A.Alpha Diallo, F. A.Fatoumata Abdoulaye Diallo, M. S.Mamadou Saliou Diallo, A.Ayouba Diarra, S.Samba Diarra, O.Oualy Diawara, B.Bonnie Dighero-Kemp, S.Samba Diop, W.Waly Diouf, S.Saurabh Dixit, B.Barry Djenabou, L.Laurie Doepel, E.Eric D’ortenzio, S.Seydou Doumbia, M. M.Moussa Moise Doumbia, M.Macaya Douoguih, N.Nelson Dozier, N. D.Natasha Dubois Cauwelaert, A.Alain Duchêne, M.Michael Duvenhage, R.Risa Eckes, E.Elizabeth Elliott, L.Luisa Enria, H.Hélène Espérou, C.Cécile Etienne, A.Allison Eyler, L.Lawrence Fakoli, M.Mosoka Fallah, M.-A.Marie-Alix Fauvel, S.Sylvain Faye, J.John Fayiah, S.Suzanne Fleck, V.Vemy Fofana, K. F.Karine Fouth Tchos, K.Kokulo Franklin, D.Daniela Fusco, A.Auguste Gaddah, M.Marylène Gaignet, K.Katherine Gallagher, J.Julie Gardner, H.Harrison Gichini, J. G.Julia Garcia Gozalbes, G.Greg Grandits, M.Maima Gray, B.Brian Greenwood, N.Nico Grobler, R.Robin Gross, L.Louis Grue, B.Birgit Grund, O.Oumar Guindo, S.Swati Gupta, F.Fadima Haidara, B.Benjamin Hamzé, E.Emma Hancox, J.-C.Jean-Christophe Hébert, J.Jenny Hendriks, P.Patricia Hensley, L.Lisa Hensley, B.Betsey Herpin, E.Elisabeth Higgs, T.Trudi Hilton, M.Mickael Hneino, T.-A.Tracey-Ann Höeltermannl, H. P.Horace Preston Holley, M.Marie Hoover, N.Natasha Howard, M.Melissa Hughes, D.Dicko Ilo, S.Skip Irvine, D.David Ishola, Y.Yvonne Jato, M.Madison Joe, M.Melvin Johnson, A. S.Aboubacar Sidiki Kaba, J.Jonathan Kagan, K.Kade Kallon, M.Michael Kamara, M.Myriam Kante, J.Judith Katoudi, C. M.Cheick Mohamed Keita, S.Sakoba Keita, S.Seykou Keita, S.Stephen Kennedy, B.Babajide Keshinro, H.Hassan Kiawu, M.Mark Kieh, B.Brent Killinger, M.Moumouni Kinda, M.Matthew Kirchoff, G.Gregory Kocher, M.Mamoudou Kodio, B.Brian Kohn, L.Lamine Koivogui, R.Richard Kojan, C. F.Cece Francis Kolié, J. S.Jacques Seraphin Kolié, D.David Kollie, S.Stacy Kopka, B.Bockarie Koroma, D.Dickens Kowuor, C.Catherine Kpayieli-Freeman, L.Liane Kwast, C.Christine Lacabaratz, B.Boris Lacarra, L.Laurie Lambert, C.Courtney Lambeth, S.Solange Lancrey-Javal, H. C.H. Clifford Lane, S.Shadrach Langba, B.Bolarinde Lawal, A.-T. W.Andrew Wen-Tseng Lee, S.Shona Lee, S.Shelley Lees, A.Annabelle Lefevre, B.Bailah Leigh, F.Frederic Lemarcis, Y.Yves Lévy, C.Claire Levy-Marchal, M.Maarten Leyssen, E.Edouard Lhomme, J.Janie Liang, M.Mameni Linga, K.Ken Liu, B.Brett Lowe, J.Julia Lysander, I.Ibrah Mahamadou, I.Irina Maljkovic-Berry, M.Marvington Mambiah, D.Daniela Manno, J.Jonathan Marchand, L.Lindsay Marron, M.Moses Massaquoi, L.Laure Masson, C.Charly Matard, S.Steven Mazur, J.John Mccullough, K.Katherine Mcfadyen, C.Chelsea Mclean, N.Noémie Mercier, P.Pauline Michavila, T.Tracey Miller, N. P.Niouma Pascal Millimouno, A.Alejandra Miranda, S.Soumaya Mohamed, T.Tom Mooney, D.Dally Muamba, J.James Mulbah, R. L.Rita Lukoo Ndamenyaa, J.James Neaton, D.Désiré Neboua, M.Micki Nelson, K.Kevin Newell, V.-K.Vinh-Kim Nguyen, Y.Yusupha Njie, W.Wissedi Njoh, A.Anna Novotney-Barry, M.Matthew Onorato, U.Uma Onwuchekwa, S.Susan Orsega, I.Inmaculada Ortega-Perez, C.Cynthia Osborne, T.Tuda Otieno, D.Davy Oulaï, S.Sushma Patel, D.Danielle Peart, M.Martine Peeters, J.James Pettitt, N.Nathan Peiffer-Smadja, R.Robert Phillips, J.Jerome Pierson, P.Peter Piot, M.Micheal Piziali, S.Stéphany Pong, E.Elena Postnikova, C.Calvin Proffitt, A.Alexandre Quach, S.Sinead Quigley, N.Nadeeka Randunu, L.Laura Richert, P.Priscille Rivière, C.Cynthia Robinson, C.Céline Roy, A. F.Amy Falk Russell, P.Philip Sahr, K.Katy Saliba, M.Mohamed Samai, S.Sibiry Samake, J.Jen Sandrus, I.Ibrahim Sanogo, Y. S.Yeya Sadio Sarro, S.Serge Sawadogo, S.Sani Sayadi, M.Maxime Schvartz, C.Christine Schwimmer, F.Fatou Secka, H.Heema Sharma, D.Denise Shelley, B.Bode Shobayo, S.Sophia Siddiqui, J.Jakub Simon, S.Shelly Simpson, B. M.Billy Muyisa Sivahera, K.Karen Slater, M.Mary Smolskis, E.Elizabeth Smout, E.Emily Snowden, A.-A.Anne-Aygline Soutthiphong, A.Amadou Sow, S.Samba Sow, Y.Ydrissa Sow, M.Michael Stirratt, J.Jeroen Stoop, G.Guna Subramaniam, L.Léa Surugue, N.Nathalie Swales, S.Sienneh Tamba, C.Chan Tang, C.Cheick Tangara, M.Milagritos Tapia, J.Julius Teahton, J.Jemee Tegli, M.Monique Termote, G.Guillaume Thaurignac, R.Rodolphe Thiebaut, G.Greg Thompson, J.John Tierney, D.Daniel Tindanbil, A.Abdoulaye Touré, E.Elvis Towalid, S.Stacey Traina, A.Awa Traore, T.Tijili Tyee, D.David Vallée, R.Renaud Vatrinet, C.Corine Vincent, S.Susan Vogel, C.Cedrick Wallet, T.Travis Warren, D.Deborah Watson-Jones, W.Wade Weaver, D.Deborah Wentworth, C.Cecelia Wesseh, H.Hilary Whitworth, J.Jimmy Whitworth, A.Aurelie Wiedemann, W.Wouter Willems, B.Barthalomew Wilson, J.Jayanthi Wolf, A.Alie Wurie, D.Delphine Yamadjako, Q.Quiawiah Yarmie, Y.Yazdan Yazdanpanah, S.Shuiqing Yu, Z.Zara Zeggani and H.Huanying Zhou. Long-term cellular immunity of vaccines for Zaire Ebola Virus Diseases.Nature Communications151September 2024, 7666HALDOIback to text

Invited conferences

• 50 inproceedingsM.Marta Avalos. A Biostatistician in the Era of a Paradigm Shift Towards Data Science in Epidemiology.1st SMILE Workshop on Statistical Modeling, Nonparametric Inference, and Model Selection for Complex DataValparaiso, ChileAugust 2024HALback to text
• 51 inproceedingsM.Marta Avalos, J.John Barrera, C.Cristian Meza, S.Susana Eyheramendy, L.-E.Louise-Eva Vandenborght, R.Raphaël Enaud and L.Laurence Delhaes. Challenges of Microbiome Data Analysis in Chronic Respiratory Disease Studies: Examples from Three French Studies.International Conference on Statistics and Data Science (ICSDS)Nice, FranceDecember 2024HALback to textback to text

International peer-reviewed conferences

• 52 inproceedingsM.Marta Avalos, D.Dalia Cohen, D.Dylan Russon, M.Melissa Davids, O.Océane Dorémus, G.Gabrielle Chenais, E.Eric Tellier, C.Cédric Gil-Jardiné and E.Emmanuel Lagarde. Detecting Human Bias in Emergency Triage Using LLMs: Literature Review, Preliminary Study, and Experimental Plan.FLAIRS 2024 - 37th International Florida Artificial Intelligence Research Society Conference37Miramar Beach, United StatesLibraryPress@UF; FLVC Library ServicesMay 2024, 6HAL
• 53 inproceedingsT.Thomas Ferté, D.Dan Dutartre, B. P.Boris P. Hejblum, R.Romain Griffier, V.Vianney Jouhet, R.Rodolphe Thiébaut, X.Xavier Hinaut and P.Pierrick Legrand. 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.16th International Conference, Évolution Artificielle, EA 2024Lecture Notes in Computer ScienceBordeaux, FranceOctober 2024HAL
• 54 inproceedingsA.Ariel Guerra-Adames, M.Marta Avalos, D.Dalia Cohen, D.Dylan Russon, M.Melissa Davids, O.Océane Doremus, G.Gabrielle Chenais, E.Eric Tellier, C.Cédric Gil-Jardiné and E.Emmanuel Lagarde. Reflections for the design of an experimental protocol for Bias Detection in Hospital Emergency Triage using Language Models.EvalLLM2024 - Atelier sur l'évaluation des modèles génératifs (LLM) et challence d'extraction d'information few-shotToulouse, FranceJuly 2024HAL
• 55 inproceedingsC.Cyrille Kone, E.Emilie Kaufmann and L.Laura Richert. Bandit Pareto Set Identification: the Fixed Budget Setting.Proceedings of Machine Learning ResearchAISTATSValencia (Espagne), SpainMay 2024HAL

Conferences without proceedings

• 56 inproceedingsT.Thomas Ferté, D.Dan Dutartre, B. P.Boris P. Hejblum, R.Romain Griffier, V.Vianney Jouhet, R.Rodolphe Thiébaut, P.Pierrick Legrand and X.Xavier Hinaut. Reservoir Computing for Short High-Dimensional Time Series: an Application to SARS-CoV-2 Hospitalization Forecast.ICML'24: Proceedings of the 41st International Conference on Machine Learning235Proceedings of Machine Learning ResearchVienna, Austria, FranceJuly 2024, 13570--13591HALDOIback to textback to text