Antoine Neuraz


Antoine Neuraz,
MD-PhD
email: first dot last at aphp dot fr
postal address: Service d’Informatique Biomédicale, Hôpital Necker, AP-HP, 24 Boulevard du Montparnasse, 75015 Paris
web page: LinkedIn page
bio: Antoine is a medical doctor specializing in biomedical informatics. His work focuses on the secondary use on healthcare data: information extraction through natural language processing, deep patient representation, large scale association studies. 

Research projects
.R2D2
.MedKit
.pyMedExt


Publications

Publications HAL de antoine, neuraz

2023

Journal articles

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Tommaso Lo Barco, Nicolas Garcelon, Antoine Neuraz, Rima Nabbout. Natural history of rare diseases using Natural Language Processing of narrative unstructured electronic health records: the example of Dravet syndrome. Epilepsia, 2023, ⟨10.1111/epi.17855⟩. ⟨hal-04341612⟩
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Tommaso Lo Barco, Nicolas Garcelon, Antoine Neuraz, Rima Nabbout. Natural history of rare diseases using Natural Language Processing of narrative unstructured electronic health records: the example of Dravet syndrome. Epilepsia, 2023, ⟨10.1111/epi.17855⟩. ⟨hal-04339458⟩
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Tommaso Lo Barco, Nicolas Garcelon, Antoine Neuraz, Rima Nabbout. Natural history of rare diseases using Natural Language Processing of narrative unstructured electronic health records: the example of Dravet syndrome. Epilepsia, 2023, ⟨10.1111/epi.17855⟩. ⟨hal-04344288⟩
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Laura Polivka, Marine Madrange, Cristina Bulai-Livideanu, Stéphane Barete, Thomas Ballul, et al.. Pathophysiologic implications of elevated prevalence of hereditary alpha-tryptasemia in all mastocytosis subtypes. Journal of Allergy and Clinical Immunology, 2023, ⟨10.1016/j.jaci.2023.08.015⟩. ⟨hal-04339470⟩
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Manon Beauvais, Rola Abou Taam, Antoine Neuraz, Muriel Le Bourgeois, Christophe Delacourt, et al.. Hyperventilation syndrome in children with asthma. Journal of Asthma, 2023, 60 (11), pp.1987-1996. ⟨10.1080/02770903.2023.2206903⟩. ⟨hal-04339495⟩
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Sophie Quennelle, Maxime Douillet, Lisa Friedlander, Olivia Boyer, Antoine Neuraz, et al.. The Smart Data Extractor, a Clinician Friendly Solution to Accelerate and Improve the Data Collection During Clinical Trials. Studies in Health Technology and Informatics, 2023, Studies in Health Technology and Informatics, ⟨10.3233/SHTI230112⟩. ⟨hal-04339483⟩
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https://arxiv.org/pdf/2308.16537 BibTex
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Nicolas Hoertel, Marina Sánchez-Rico, Pedro de La Muela, Miriam Abellán, Carlos Blanco, et al.. Risk of death in individuals hospitalized for COVID-19 with and without psychiatric disorders: an observational multicenter study in France. Biological Psychiatry Global Open Science, 2023, pp.56-67. ⟨10.1016/j.bpsgos.2021.12.007⟩. ⟨inserm-03536917⟩
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https://inserm.hal.science/inserm-03536917/file/Hoertel%20et%20al.%20Biol%20Psychiatry%20Glob%20Open%20Sci.%202022.pdf BibTex

Conference papers

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Antoine Neuraz, Ivan Lerner, Olivier Birot, Camila Arias, Larry Han, et al.. TAXN: Translate Align Extract Normalize, a multilingual extraction tool for clinical texts. MedInfo 2023 – the 19th world congress on Medical and Health Informatics, International Medical Informatics Association (IMIA), Jul 2023, Syndney, Australia. ⟨hal-04069590⟩
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https://inria.hal.science/hal-04069590/file/neuraz_et_al_medinfo2023.pdf BibTex

Book sections

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Sophie Quennelle, Maxime Douillet, Lisa Friedlander, Olivia Boyer, Antoine Neuraz, et al.. The Smart Data Extractor, a Clinician Friendly Solution to Accelerate and Improve the Data Collection During Clinical Trials. Caring is Sharing – Exploiting the Value in Data for Health and Innovation, 302, 2023, Studies in Health Technology and Informatics, ⟨10.3233/SHTI230112⟩. ⟨hal-04191423⟩
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https://hal.science/hal-04191423/file/SmartDataExtractor-Final-MIE-Submission.pdf BibTex

2022

Journal articles

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Griffin Weber, Chuan Hong, Zongqi Xia, Nathan Palmer, Paul Avillach, et al.. International comparisons of laboratory values from the 4CE collaborative to predict COVID-19 mortality. npj Digital Medicine, 2022, 5 (1), pp.74. ⟨10.1038/s41746-022-00601-0⟩. ⟨hal-03886991⟩
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Xuan Wang, Harrison Zhang, Xin Xiong, Chuan Hong, Griffin Weber, et al.. SurvMaximin: Robust federated approach to transporting survival risk prediction models. Journal of Biomedical Informatics, 2022, 134, pp.104176. ⟨10.1016/j.jbi.2022.104176⟩. ⟨hal-03886953⟩
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François Gaillard, Mélissa Ould Rabah, Nicolas Garcelon, Malik Touam, Antoine Neuraz, et al.. Allograft function and muscle mass evolution after kidney transplantation. Journal of Cachexia, Sarcopenia and Muscle, 2022, ⟨10.1002/jcsm.13066⟩. ⟨hal-03794605⟩
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François Gaillard, Mélissa Ould Rabah, Nicolas Garcelon, Malik Touam, Antoine Neuraz, et al.. Allograft function and muscle mass evolution after kidney transplantation. Journal of Cachexia, Sarcopenia and Muscle, 2022, 13 (6), pp.2875-2887. ⟨10.1002/jcsm.13066⟩. ⟨hal-04339560⟩
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Xuan Wang, Harrison G. Zhang, Xin Xiong, Chuan Hong, Griffin M. Weber, et al.. SurvMaximin: Robust federated approach to transporting survival risk prediction models. Journal of Biomedical Informatics, 2022, 134, ⟨10.1016/j.jbi.2022.104176⟩. ⟨hal-03834307⟩
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Chuan Hong, Harrison Zhang, Sehi L’Yi, Griffin Weber, Paul Avillach, et al.. Changes in laboratory value improvement and mortality rates over the course of the pandemic: an international retrospective cohort study of hospitalised patients infected with SARS-CoV-2. BMJ Open, 2022, 12 (6), pp.e057725. ⟨10.1136/bmjopen-2021-057725⟩. ⟨hal-03886983⟩
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Camille Cohen, Séverine Coulon, Kanit Bhukhai, Antoine Neuraz, Michael Dussiot, et al.. Erythrocytosis associated with IgA nephropathy. EBioMedicine, 2022, 75, pp.103785. ⟨10.1016/j.ebiom.2021.103785⟩. ⟨hal-03887035⟩
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https://inria.hal.science/hal-03887035/file/S235239642100579X.pdf BibTex
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Ivan Lerner, Arnaud Serret-Larmande, Bastien Rance, Nicolas Garcelon, Anita Burgun, et al.. Mining Electronic Health Records for Drugs Associated With 28-day Mortality in COVID-19: Pharmacopoeia-wide Association Study (PharmWAS). JMIR Medical Informatics, 2022, 10 (3), pp.e35190. ⟨10.2196/35190⟩. ⟨hal-03792405v2⟩
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https://hal.science/hal-03792405/file/Mining%20Electronic%20Health%20Records%20for%20Drugs%20Associated%20With.pdf BibTex
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Harrison G. Zhang, Arianna Dagliati, Zahra Shakeri Hossein Abad, Xin Xiong, Clara-Lea Bonzel, et al.. International electronic health record-derived post-acute sequelae profiles of COVID-19 patients. npj Digital Medicine, 2022, 5 (1), pp.81. ⟨10.1038/s41746-022-00623-8⟩. ⟨hal-03722096⟩
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https://hal.science/hal-03722096/file/BPH_NPJDM_2022_Zhang.pdf BibTex
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Elise Payen, Antoine Neuraz, Letizia Zenzeri, Cécile Talbotec, Elie Abi Nader, et al.. Adalimumab therapy in pediatric Crohn’s Disease: a two-year follow-up comparing ‘top-down’ and ‘step-up’ strategies.. Journal of Pediatric Gastroenterology and Nutrition, 2022, Publish Ahead of Print, ⟨10.1097/MPG.0000000000003643⟩. ⟨hal-03886928⟩
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Book sections

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Adrien Boukobza, Maxime Wack, Antoine Neuraz, Daniela Geromin, Cécile Badoual, et al.. Determining the Set of Items to Include in Breast Operative Reports, Using Clustering Algorithms on Retrospective Data Extracted from Clinical DataWarehouse. Advances in Informatics, Management and Technology in Healthcare, 295, IOS Press, pp.45-48, 2022, Studies in Health Technology and Informatics, ⟨10.3233/SHTI220656⟩. ⟨hal-03738958⟩
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Marc Vincent, Maxime Douillet, Ivan Lerner, Antoine Neuraz, Anita Burgun, et al.. Using Deep Learning to Improve Phenotyping from Clinical Reports. MEDINFO 2021: One World, One Health – Global Partnership for Digital Innovation, IOS Press, 2022, Studies in Health Technology and Informatics, ⟨10.3233/SHTI220079⟩. ⟨hal-03880500⟩
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Marc Vincent, Maxime Douillet, Ivan Lerner, Antoine Neuraz, Anita Burgun, et al.. Using Deep Learning to Improve Phenotyping from Clinical Reports. MEDINFO 2021: One World, One Health – Global Partnership for Digital Innovation, IOS Press, 2022, Studies in Health Technology and Informatics, ⟨10.3233/SHTI220079⟩. ⟨hal-03887001⟩
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2021

Journal articles

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Marina Sánchez-Rico, Frédéric Limosin, Raphaël Vernet, Nathanaël Beeker, Antoine Neuraz, et al.. Hydroxyzine Use and Mortality in Patients Hospitalized for COVID-19: A Multicenter Observational Study. Journal of Clinical Medicine, 2021, 10 (24), pp.5891. ⟨10.3390/jcm10245891⟩. ⟨hal-03519439⟩
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https://hal.sorbonne-universite.fr/hal-03519439/file/jcm-10-05891.pdf BibTex
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Tommaso Lo Barco, Mathieu Kuchenbuch, Nicolas Garcelon, Antoine Neuraz, Rima Nabbout. Improving early diagnosis of rare diseases using Natural Language Processing in unstructured medical records: an illustration from Dravet syndrome. Orphanet Journal of Rare Diseases, 2021, 16 (1), pp.309. ⟨10.1186/s13023-021-01936-9⟩. ⟨hal-03887075⟩
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Hossein Estiri, Zachary Strasser, Gabriel Brat, Yevgeniy Semenov, Chirag Patel, et al.. Evolving phenotypes of non-hospitalized patients that indicate long COVID. BMC Medicine, 2021, 19 (1), pp.249. ⟨10.1186/s12916-021-02115-0⟩. ⟨hal-03476717⟩
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Trang Le, Alba Gutiérrez-Sacristán, Jiyeon Son, Chuan Hong, Andrew South, et al.. Multinational characterization of neurological phenotypes in patients hospitalized with COVID-19. Scientific Reports, 2021, 11 (1), pp.20238. ⟨10.1038/s41598-021-99481-9⟩. ⟨hal-03476703⟩
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Tommaso Lo Barco, Mathieu Kuchenbuch, Nicolas Garcelon, Antoine Neuraz, Rima Nabbout. Improving early diagnosis of rare diseases using Natural Language Processing in unstructured medical records: an illustration from Dravet syndrome. Orphanet Journal of Rare Diseases, 2021, 16 (1), pp.309. ⟨10.1186/s13023-021-01936-9⟩. ⟨hal-03967487⟩
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https://inria.hal.science/hal-03967487/file/s13023-021-01936-9.pdf BibTex
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Marina Sánchez-Rico, Frédéric Limosin, Raphaël Vernet, Nathanaël Beeker, Antoine Neuraz, et al.. Hydroxyzine Use and Mortality in Patients Hospitalized for COVID-19: A Multicenter Observational Study. Journal of Clinical Medicine, 2021, 10 (24), pp.5891. ⟨10.3390/jcm10245891⟩. ⟨hal-03887044⟩
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Yannis Lombardi, Loris Azoyan, Piotr Szychowiak, Ali Bellamine, Guillaume Lemaitre, et al.. External validation of prognostic scores for COVID-19: a multicenter cohort study of patients hospitalized in Greater Paris University Hospitals. Intensive Care Medicine, 2021, 47 (12), pp.1426-1439. ⟨10.1007/s00134-021-06524-w⟩. ⟨hal-03967472v2⟩
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https://inria.hal.science/hal-03967472/file/s00134-021-06524-w.pdf BibTex
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Judith Chareyre, Antoine Neuraz, Alina Badina, Christine Barnerias, Marie Hully, et al.. Postnatal Diagnostic Workup in Children With Arthrogryposis: A Series of 82 Patients. Journal of Child Neurology, 2021, 36 (12), pp.1071-1077. ⟨10.1177/08830738211022972⟩. ⟨hal-03476730⟩
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Nicolas Hoertel, Marina Sánchez-Rico, Raphaël Vernet, Nathanaël Beeker, Antoine Neuraz, et al.. Dexamethasone Use and Mortality in Hospitalized Patients with Coronavirus Disease 2019: a Multicenter Retrospective Observational Study. British Journal of Clinical Pharmacology, 2021, 87 (10), pp.3766-3775. ⟨10.1111/bcp.14784⟩. ⟨hal-03463231⟩
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https://inria.hal.science/hal-03463231/file/Dexamethasone%20use%20and%20Mortality%20in%20Hospitalized%20Patients%20with%20Coronavirus%20Disease%202019.pdf BibTex
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Gizem Pamuk, Muriel Le Bourgeois, Rola Abou Taam, Antoine Neuraz, Jacques de Blic, et al.. The economic burden of allergic comorbidities in pediatric severe asthma. Pediatric Allergy and Immunology, 2021, 32 (7), pp.1559-1565. ⟨10.1111/pai.13532⟩. ⟨hal-03476744⟩
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Nicolas Hoertel, Marina Sánchez-Rico, Raphaël Vernet, Nathanaël Beeker, Anne-Sophie Jannot, et al.. Association between antidepressant use and reduced risk of intubation or death in hospitalized patients with COVID-19: results from an observational study. Molecular Psychiatry, 2021, 26 (9), pp.5199-5212. ⟨10.1038/s41380-021-01021-4⟩. ⟨hal-03887177⟩
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Karine Adel-Patient, Marta Grauso, Rola Abou-Taam, Blanche Guillon, Céline Dietrich, et al.. A Comprehensive Analysis of Immune Constituents in Blood and Bronchoalveolar Lavage Allows Identification of an Immune Signature of Severe Asthma in Children. Frontiers in Immunology, 2021, 12, ⟨10.3389/fimmu.2021.700521⟩. ⟨hal-03327837⟩
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https://hal.science/hal-03327837/file/fimmu-12-700521.pdf BibTex
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Karine Adel-Patient, Marta Grauso, Rola Abou-Taam, Blanche Guillon, Céline Dietrich, et al.. A Comprehensive Analysis of Immune Constituents in Blood and Bronchoalveolar Lavage Allows Identification of an Immune Signature of Severe Asthma in Children. Frontiers in Immunology, 2021, 12 (12), pp.1071-1077. ⟨10.3389/fimmu.2021.700521⟩. ⟨hal-03887070⟩
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Tommaso Lo Barco, Mathieu Kuchenbuch, Nicolas Garcelon, Antoine Neuraz, Rima Nabbout. Improving early diagnosis of rare diseases using Natural Language Processing in unstructured medical records: an illustration from Dravet syndrome. Orphanet Journal of Rare Diseases, 2021, 16 (1), ⟨10.1186/s13023-021-01936-9⟩. ⟨hal-03288000⟩
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https://hal.sorbonne-universite.fr/hal-03288000/file/s13023-021-01936-9.pdf BibTex
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Karine Adel-Patient, Marta Grauso, Rola Abou-Taam, Blanche Guillon, Céline Dietrich, et al.. Immune signatures distinguish frequent from non‐frequent exacerbators among children with severe asthma. Allergy, 2021, 76 (7), pp.2261-2264. ⟨10.1111/all.14759⟩. ⟨hal-03887168⟩
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Leonardo Campillos-Llanos, Catherine Thomas, Éric Bilinski, Antoine Neuraz, Sophie Rosset, et al.. Lessons Learned from the Usability Evaluation of a Simulated Patient Dialogue System. Journal of Medical Systems, 2021, 45 (7), ⟨10.1007/s10916-021-01737-4⟩. ⟨hal-03452553⟩
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https://hal.science/hal-03452553/file/Lessons-Learned-from-the-Usability-Evaluation-of-a-Simulated-Patient-Dialogue-System.pdf BibTex
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Florence Bourgeois, Alba Gutiérrez-Sacristán, Mark Keller, Molei Liu, Chuan Hong, et al.. International Analysis of Electronic Health Records of Children and Youth Hospitalized With COVID-19 Infection in 6 Countries. JAMA Network Open, 2021, 4 (6), pp.e2112596. ⟨10.1001/jamanetworkopen.2021.12596⟩. ⟨hal-03476737⟩
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Nicolas Hoertel, Marina Sánchez-Rico, Erich Gulbins, Johannes Kornhuber, Alexander Carpinteiro, et al.. Association between FIASMAs and Reduced Risk of Intubation or Death in Individuals Hospitalized for Severe COVID-19: an observational multicenter study.. Clinical Pharmacology and Therapeutics, 2021, Online ahead of print. ⟨10.1002/CPT.2317⟩. ⟨inserm-03248408⟩
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https://inserm.hal.science/inserm-03248408/file/Hoertel%20et%20al.%20Clin%20Pharmacol%20Ther.%202021%20%281%29.pdf BibTex
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Adrien Coulet, Stéphanie Allassonniere, François Angoulvant, Anita Burgun, Xiaoyi Chen, et al.. L’équipe-projet HeKA. Bulletin de l’Association Française pour l’Intelligence Artificielle, 2021, 112, pp.29-32. ⟨hal-03485904⟩
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https://inria.hal.science/hal-03485904/file/equipe-projet_heka.pdf BibTex
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Cindy Abdoul, Pierrick Cros, Laurianne Coutier, Alice Hadchouel, Antoine Neuraz, et al.. Parents’ views on artificial intelligence for the daily management of childhood asthma: a survey. Journal of Allergy and Clinical Immunology: In Practice, 2021, 9 (4), pp.1728-1730.e3. ⟨10.1016/j.jaip.2020.11.048⟩. ⟨hal-03476824⟩
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https://inria.hal.science/hal-03476824/file/S221321982031271X.pdf BibTex
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Laura Polivka, Julien Rossignol, Antoine Neuraz, Djiba Condé, Julie Agopian, et al.. Criteria for the Regression of Pediatric Mastocytosis: A Long-Term Follow-Up. Journal of Allergy and Clinical Immunology: In Practice, 2021, 9 (4), pp.1695-1704.e5. ⟨10.1016/j.jaip.2020.12.019⟩. ⟨hal-03476810⟩
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https://inria.hal.science/hal-03476810/file/S2213219820313519.pdf BibTex
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Laura Polivka, Julien Rossignol, Antoine Neuraz, Djiba Condé, Julie Agopian, et al.. Criteria for the Regression of Pediatric Mastocytosis: A Long-Term Follow-Up. Journal of Allergy and Clinical Immunology: In Practice, 2021, 9 (4), pp.1695-1704.e5. ⟨10.1016/j.jaip.2020.12.019⟩. ⟨hal-04360190⟩
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William Digan, Aurélie Névéol, Antoine Neuraz, Maxime Wack, David Baudoin, et al.. Can reproducibility be improved in clinical natural language processing? A study of 7 clinical NLP suites. Journal of the American Medical Informatics Association, 2021, 28 (3), pp.504-515. ⟨10.1093/jamia/ocaa261⟩. ⟨hal-03887189⟩
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Nicolas Hoertel, Marina Sanchez-Rico, Raphaël Vernet, Anne-Sophie Jannot, Antoine Neuraz, et al.. Observational Study of Chlorpromazine in Hospitalized Patients with Covid-19 Running title: Chlorpromazine in hospitalized patients with Covid-19. Clinical Drug Investigation, 2021, ⟨10.1007/s40261-021-01001-0⟩. ⟨hal-03483927⟩
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https://inria.hal.science/hal-03483927/file/3.Chlorpromazine%20in%20hospitalized%20patients%20with%20Covid-19.pdf BibTex
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Nicolas Hoertel, Marina Sánchez-Rico, Raphaël Vernet, Anne-Sophie Jannot, Antoine Neuraz, et al.. Observational study of haloperidol in hospitalized patients with COVID-19. PLoS ONE, 2021, 16 (2), pp.e0247122. ⟨10.1371/journal.pone.0247122⟩. ⟨hal-03148564⟩
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https://hal.sorbonne-universite.fr/hal-03148564/file/journal.pone.0247122.pdf BibTex
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Laurent Chouchana, Nathanaël Beeker, Nathanaël Beeker, Nicolas Garcelon, Nicolas Garcelon, et al.. Association of Antihypertensive Agents with the Risk of In-Hospital Death in Patients with Covid-19. Cardiovascular Drugs and Therapy, 2021, 36 (3), pp.483-488. ⟨10.1007/s10557-021-07155-5⟩. ⟨hal-04360151⟩
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Laurent Chouchana, Nathanaël Beeker, Nicolas Garcelon, Bastien Rance, Nicolas Paris, et al.. Association of Antihypertensive Agents with the Risk of In-Hospital Death in Patients with Covid-19. Cardiovascular Drugs and Therapy, 2021, ⟨10.1007/s10557-021-07155-5⟩. ⟨hal-03476800⟩
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Karine Adel-Patient, Marta Grauso, Rola Abou-Taam, Blanche Guillon, Céline Dietrich, et al.. Observational Study of Chlorpromazine in Hospitalized Patients with COVID-19. Clinical Drug Investigation, 2021, 41 (3), pp.221-233. ⟨10.1111/all.14759⟩. ⟨hal-04360161⟩
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Karine Adel-Patient, Marta Grauso, Rola Abou Taam, Blanche Guillon, Céline Dietrich, et al.. Immune signatures distinguish frequent from non-frequent exacerbators among children with severe asthma. Allergy, 2021, 76 (7), pp.2261-2264. ⟨10.1111/all.14759⟩. ⟨hal-03133856⟩
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https://hal.science/hal-03133856/file/Adel-Patient%20et%20al%20Allergy.pdf BibTex
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Vincent Looten, Antoine Neuraz, Nicolas Garcelon, Anita Burgun, Gilles Chatellier, et al.. The Epidemiology of Patients’ Email Addresses in a French University Hospital: Case-Control Study. Journal of Medical Internet Research, 2021, 23 (2), pp.e13992. ⟨10.2196/13992⟩. ⟨hal-03476768⟩
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https://inria.hal.science/hal-03476768/file/PDF.pdf BibTex
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Jordan Jouffroy, Sarah Feldman, Ivan Lerner, Bastien Rance, Anita Burgun, et al.. Hybrid Deep Learning for Medication-Related Information Extraction From Clinical Texts in French: MedExt Algorithm Development Study. JMIR Medical Informatics, 2021, 9 (3), pp.e17934. ⟨10.2196/17934⟩. ⟨hal-03476758⟩
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Isaac Kohane, Bruce Aronow, Paul Avillach, Brett Beaulieu-Jones, Riccardo Bellazzi, et al.. What Every Reader Should Know About Studies Using Electronic Health Record Data but May Be Afraid to Ask. Journal of Medical Internet Research, 2021, 23 (3), pp.e22219. ⟨10.2196/22219⟩. ⟨hal-03476779⟩
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Griffin Weber, Harrison Zhang, Sehi L’Yi, Clara-Lea Bonzel, Chuan Hong, et al.. International Changes in COVID-19 Clinical Trajectories Across 315 Hospitals and 6 Countries: Retrospective Cohort Study. Journal of Medical Internet Research, 2021, 23 (10), pp.e31400. ⟨10.2196/31400⟩. ⟨hal-03476723⟩
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2020

Journal articles

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William Digan, Aurélie Névéol, Antoine Neuraz, Maxime Wack, David Baudoin, et al.. Can reproducibility be improved in clinical natural language processing? A study of 7 clinical NLP suites. Journal of the American Medical Informatics Association, 2020, ⟨10.1093/jamia/ocaa261⟩. ⟨hal-03118455⟩
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https://hal.science/hal-03118455/file/DiganJAMIA2020_pmc.pdf BibTex
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David Dawei Yang, Geneviève Baujat, Antoine Neuraz, Nicolas Garcelon, Claude Messiaen, et al.. Healthcare trajectory of children with rare bone disease attending pediatric emergency departments. Orphanet Journal of Rare Diseases, 2020, 15 (1), pp.2. ⟨10.1186/s13023-019-1284-1⟩. ⟨hal-03962408⟩
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Sébastien Czernichow, Nathanael Beeker, Claire Rives‐lange, Emmanuel Guerot, Jean‐luc Diehl, et al.. Obesity Doubles Mortality in Patients Hospitalized for Severe Acute Respiratory Syndrome Coronavirus 2 in Paris Hospitals, France: A Cohort Study on 5,795 Patients. Obesity, 2020, 28 (12), pp.2282-2289. ⟨10.1002/oby.23014⟩. ⟨hal-03677189⟩
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David Dawei Yang, Geneviève Baujat, Antoine Neuraz, Nicolas Garcelon, Claude Messiaen, et al.. Healthcare trajectory of children with rare bone disease attending pediatric emergency departments. Orphanet Journal of Rare Diseases, 2020, 15 (1), pp.2. ⟨10.1186/s13023-019-1284-1⟩. ⟨hal-03887220⟩
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Sébastien Czernichow, Nathanael Beeker, Claire Rives-Lange, Emmanuel Guerot, Jean‐luc Diehl, et al.. Obesity Doubles Mortality in Patients Hospitalized for Severe Acute Respiratory Syndrome Coronavirus 2 in Paris Hospitals, France: A Cohort Study on 5,795 Patients. Obesity, 2020, 28 (12), pp.2282-2289. ⟨10.1002/oby.23014⟩. ⟨hal-03967463⟩
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David Dawei Yang, Geneviève Baujat, Antoine Neuraz, Nicolas Garcelon, Claude Messiaen, et al.. Healthcare trajectory of children with rare bone disease attending pediatric emergency departments. Orphanet Journal of Rare Diseases, 2020, 15 (1), pp.2. ⟨10.1186/s13023-019-1284-1⟩. ⟨hal-03944517⟩
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Antoine Neuraz, Bastien Rance, Nicolas Garcelon, Leonardo Campillos Llanos, Anita Burgun, et al.. The Impact of Specialized Corpora for Word Embeddings in Natural Langage Understanding.. Studies in Health Technology and Informatics, 2020, 270, pp.432-436. ⟨10.3233/SHTI200197⟩. ⟨hal-04360200⟩
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Antoine Neuraz, Bastien Rance, Nicolas Garcelon, Leonardo Campillos Llanos, Anita Burgun, et al.. The Impact of Specialized Corpora for Word Embeddings in Natural Langage Understanding.. Studies in Health Technology and Informatics, 2020, 270, pp.432-436. ⟨10.3233/SHTI200197⟩. ⟨hal-03476839⟩
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Carole Faviez, Xiaoyi Chen, Nicolas Garcelon, Antoine Neuraz, Bertrand Knebelmann, et al.. Diagnosis support systems for rare diseases: a scoping review. Orphanet Journal of Rare Diseases, 2020, 15 (1), pp.94. ⟨10.1186/s13023-020-01374-z⟩. ⟨hal-04360206⟩
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François Brazier, Jordan Jouffroy, Frank Martinez, Thao Nguyen-Khoa, Dany Anglicheau, et al.. Association of blood bicarbonate and pH with mineral metabolism disturbance and outcome after kidney transplantation. American Journal of Transplantation, 2020, 20 (4), pp.1063-1075. ⟨10.1111/ajt.15686⟩. ⟨hal-03887229⟩
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Nicolas Garcelon, Anita Burgun, Rémi Salomon, Antoine Neuraz. Electronic health records for the diagnosis of rare diseases. Kidney International, 2020, 97 (4), pp.676-686. ⟨10.1016/j.kint.2019.11.037⟩. ⟨hal-03476852⟩
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https://inria.hal.science/hal-03476852/file/S0085253820300120.pdf BibTex
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Antoine Neuraz, Ivan Lerner, William Digan, Nicolas Paris, Rosy Tsopra, et al.. Natural Language Processing for Rapid Response to Emergent Diseases: Case Study of Calcium Channel Blockers and Hypertension in the COVID-19 Pandemic. Journal of Medical Internet Research, 2020, 22 (8), pp.e20773. ⟨10.2196/20773⟩. ⟨hal-03738905⟩
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Carole Faviez, Xiaoyi Chen, Nicolas Garcelon, Antoine Neuraz, Bertrand Knebelmann, et al.. Diagnosis support systems for rare diseases: a scoping review. Orphanet Journal of Rare Diseases, 2020, 15 (1), pp.94. ⟨10.1186/s13023-020-01374-z⟩. ⟨hal-02570643⟩
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Antoine Neuraz, Ivan Lerner, William Digan, Nicolas Paris, Rosy Tsopra, et al.. Natural Language Processing for Rapid Response to Emergent Diseases: Case Study of Calcium Channel Blockers and Hypertension in the COVID-19 Pandemic. Journal of Medical Internet Research, 2020, 22 (8), pp.e20773. ⟨10.2196/20773⟩. ⟨hal-03119925⟩
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Conference papers

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Sahar Ghannay, Antoine Neuraz, Sophie Rosset. What is best for Spoken Language Understanding: Small but Task-dependant Embeddings or Huge but Out-of-domain Embeddings?. 45th International Conference on Acoustics, Speech, and Signal Processing (ICASSP 2020), May 2020, Barcelona, Spain. pp.8114-8118, ⟨10.1109/ICASSP40776.2020.9053278⟩. ⟨hal-02503694⟩
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Rémi Besson, Erwan Le Pennec, Emmanuel Spaggiari, Antoine Neuraz, Julien Stirnemann, et al.. Optimization of a Sequential Decision Making Problem for a Rare Disease Diagnostic Application. ICAART 2020 – 12th International Conference on Agents and Artificial Intelligence, Feb 2020, Valletta, Malta. pp.475-482, ⟨10.5220/0008938804750482⟩. ⟨hal-04432698⟩
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Theses

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Antoine Neuraz. Compréhension du langage naturel pour le dossier patient informatisé : accès à l’information et extraction d’information. Bio-informatique [q-bio.QM]. Université Paris Cité, 2020. Français. ⟨NNT : 2020UNIP5201⟩. ⟨tel-04210975⟩
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Preprints, Working Papers, …

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Emilie Sbidian, Julie Josse, Guillaume Lemaître, Imke Mayer, Melodie Bernaux, et al.. Hydroxychloroquine with or without azithromycin and in-hospital mortality or discharge in patients hospitalized for COVID-19 infection: a cohort study of 4,642 in-patients in France. 2020. ⟨hal-02995319⟩
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2019

Journal articles

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Ariane Jaoui, Delphine Delalande, Souha Siouti, Grégoire Benoist, Edouard Sève, et al.. Safety and cost effectiveness of supervised ambulatory drug provocation tests in children with mild non‐immediate reactions to beta‐lactams. Allergy, 2019, 74 (12), pp.2482-2484. ⟨10.1111/all.13871⟩. ⟨hal-03887255⟩
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Ariane Jaoui, Delphine Delalande, Souha Siouti, Grégoire Benoist, Edouard Sève, et al.. Safety and cost effectiveness of supervised ambulatory drug provocation tests in children with mild non‐immediate reactions to beta‐lactams. Allergy, 2019, 74 (12), pp.2482-2484. ⟨10.1111/all.13871⟩. ⟨hal-03962380⟩
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Xiaoyi Chen, Nicolas Garcelon, Antoine Neuraz, Katy Billot, Marc Lelarge, et al.. Phenotypic similarity for rare disease: Ciliopathy diagnoses and subtyping. Journal of Biomedical Informatics, 2019, 100, pp.103308. ⟨10.1016/j.jbi.2019.103308⟩. ⟨hal-03962406⟩
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Xiaoyi Chen, Nicolas Garcelon, Antoine Neuraz, Katy Billot, Marc Lelarge, et al.. Phenotypic similarity for rare disease: Ciliopathy diagnoses and subtyping. Journal of Biomedical Informatics, 2019, 100, pp.103308. ⟨10.1016/j.jbi.2019.103308⟩. ⟨hal-03253410⟩
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Vincent Looten, Liliane Kong Win Chang, Antoine Neuraz, Marie-Anne Landau-Loriot, Benoit Vedie, et al.. What can millions of laboratory test results tell us about the temporal aspect of data quality? Study of data spanning 17 years in a clinical data warehouse. Computer Methods and Programs in Biomedicine, 2019, 181, pp.1-20. ⟨10.1016/j.cmpb.2018.12.030⟩. ⟨hal-01978796⟩
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Antoine Neuraz, Vincent Looten, Bastien Rance, Nicolas Daniel, Nicolas Garcelon, et al.. Do You Need Embeddings Trained on a Massive Specialized Corpus for Your Clinical Natural Language Processing Task?. Studies in Health Technology and Informatics, 2019, 264, pp.1558-1559. ⟨10.3233/SHTI190533⟩. ⟨hal-03962397⟩
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Manal Mazloum, Jordan Jouffroy, François Brazier, Christophe Legendre, Antoine Neuraz, et al.. Osmoregulation Performance and Kidney Transplant Outcome. Journal of the American Society of Nephrology, 2019, 30 (7), pp.1282-1293. ⟨10.1681/ASN.2018121269⟩. ⟨hal-03887253⟩
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Xiaoyi Chen, Nicolas Garcelon, Antoine Neuraz, Katy Billot, Marc Lelarge, et al.. Phenotypic similarity for rare disease: ciliopathy diagnoses and subtyping. Journal of Biomedical Informatics, 2019. ⟨hal-02893160⟩
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Manal Mazloum, Jordan Jouffroy, François Brazier, Christophe Legendre, Antoine Neuraz, et al.. Osmoregulation Performance and Kidney Transplant Outcome. Journal of the American Society of Nephrology, 2019, 30 (7), pp.1282-1293. ⟨10.1681/ASN.2018121269⟩. ⟨hal-03962385⟩
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Conference papers

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Antoine Neuraz, Vincent Looten, Bastien Rance, Nicolas Daniel, Nicolas Garcelon, et al.. Do You Need Embeddings Trained on a Massive Specialized Corpus for Your Clinical Natural Language Processing Task?. 17th World Congress on Medical and Health Informatics (MEDINFO), MCO Congress Group, Aug 2019, Lyon, France. pp.1558-1559, ⟨10.3233/SHTI190533⟩. ⟨hal-03887246⟩
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William Digan, Maxime Wack, Vincent Looten, Antoine Neuraz, Anita Burgun, et al.. Evaluating the impact of text duplications on a corpus of more than 600,000 clinical narratives in a French Hospital. medinfo 2019, Aug 2019, Lyon, France. ⟨hal-02265124⟩
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Poster communications

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Vincent Looten, Antoine Neuraz, Nicolas Garcelon, Anita Burgun, Gilles Chatellier, et al.. Description des courriels des patients pris en charge à l’Hôpital Européen Georges Pompidou, Paris, France. EMOIS 2019, Mar 2019, Nancy, France. 67, pp.S104, 2019. ⟨hal-02069234⟩
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Proceedings

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William Digan, Maxime Wack, Vincent Looten, Antoine Neuraz, Anita Burgun, et al.. Evaluating the Impact of Text Duplications on a Corpus of More than 600,000 Clinical Narratives in a French Hospital.. Studies in Health Technology and Informatics, 264, pp.103-107, 2019, ⟨10.3233/SHTI190192⟩. ⟨hal-03887250⟩
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2018

Journal articles

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Nicolas Garcelon, Antoine Neuraz, Rémi Salomon, Nadia Bahi-Buisson, Jeanne Amiel, et al.. Next generation phenotyping using narrative reports in a rare disease clinical data warehouse. Orphanet Journal of Rare Diseases, 2018, 13 (1), pp.85. ⟨10.1186/s13023-018-0830-6⟩. ⟨hal-03962363⟩
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Nicolas Garcelon, Antoine Neuraz, Rémi Salomon, Nadia Bahi-Buisson, Jeanne Amiel, et al.. Next generation phenotyping using narrative reports in a rare disease clinical data warehouse. Orphanet Journal of Rare Diseases, 2018, 13 (1), pp.85. ⟨10.1186/s13023-018-0830-6⟩. ⟨hal-03868336⟩
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Rachid Mahmoudi, Sarah Feldman, Aymric Kisserli, Valérie Duret, Thierry Tabary, et al.. Inherited and Acquired Decrease in Complement Receptor 1 (CR1) Density on Red Blood Cells Associated with High Levels of Soluble CR1 in Alzheimer’s Disease. International Journal of Molecular Sciences, 2018, 19 (8), pii: E2175. ⟨10.3390/ijms19082175⟩. ⟨inserm-01851070⟩
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Nicolas Garcelon, Antoine Neuraz, Rémi Salomon, Hassan Faour, Vincent Benoit, et al.. A clinician friendly data warehouse oriented toward narrative reports: Dr. Warehouse. Journal of Biomedical Informatics, 2018, 80, pp.52-63. ⟨10.1016/j.jbi.2018.02.019⟩. ⟨hal-03865704⟩
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Nicolas Garcelon, Antoine Neuraz, Rémi Salomon, Hassan Faour, Vincent Benoit, et al.. A clinician friendly data warehouse oriented toward narrative reports: Dr. Warehouse. Journal of Biomedical Informatics, 2018, 80, pp.52-63. ⟨10.1016/j.jbi.2018.02.019⟩. ⟨hal-03962360⟩
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Conference papers

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Antoine Neuraz, Leonardo Campillos Llanos, Anita Burgun, Sophie Rosset. Natural language understanding for task oriented dialog in the biomedical domain in a low ressources context, NIPS Workshop. Machine Learning for Health, Dec 2018, Montréal, Québec, Canada. ⟨hal-02358037⟩
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2017

Journal articles

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Nicolas Garcelon, Antoine Neuraz, Vincent Benoit, Rémi Salomon, Sven Kracker, et al.. Finding patients using similarity measures in a rare diseases-oriented clinical data warehouse: Dr. Warehouse and the needle in the needle stack. Journal of Biomedical Informatics, 2017, 73, pp.51-61. ⟨10.1016/j.jbi.2017.07.016⟩. ⟨hal-03962341⟩
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Nicolas Garcelon, Antoine Neuraz, Vincent Benoit, Rémi Salomon, Sven Kracker, et al.. Finding patients using similarity measures in a rare diseases-oriented clinical data warehouse: Dr. Warehouse and the needle in the needle stack. Journal of Biomedical Informatics, 2017, 73, pp.51-61. ⟨10.1016/j.jbi.2017.07.016⟩. ⟨hal-03868233⟩
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Nicolas Garcelon, Antoine Neuraz, Vincent Benoit, Rémi Salomon, Anita Burgun. Improving a full-text search engine: the importance of negation detection and family history context to identify cases in a biomedical data warehouse. Journal of the American Medical Informatics Association, 2017, 24 (3), pp.607-613. ⟨10.1093/jamia/ocw144⟩. ⟨hal-03962335⟩
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Nicolas Garcelon, Antoine Neuraz, Vincent Benoit, Rémi Salomon, Anita Burgun. Improving a full-text search engine: the importance of negation detection and family history context to identify cases in a biomedical data warehouse. Journal of the American Medical Informatics Association, 2017, 24 (3), pp.607-613. ⟨10.1093/jamia/ocw144⟩. ⟨hal-03868144⟩
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2015

Journal articles

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Yannick Girardeau, Claire Trivin, Pierre Durieux, Christine Le Beller, Agnès Lillo-Le Louet, et al.. Detection of Drug–Drug Interactions Inducing Acute Kidney Injury by Electronic Health Records Mining. Drug Safety, 2015, pp.1-11. ⟨10.1007/s40264-015-0311-y⟩. ⟨hal-01174261⟩
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2013

Journal articles

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Antoine Neuraz, Laurent Chouchana, Georgia Malamut, Christine Le Beller, Denis Roche, et al.. Phenome-Wide Association Studies on a Quantitative Trait: Application to TPMT Enzyme Activity and Thiopurine Therapy in Pharmacogenomics. PLoS Computational Biology, 2013, 9 (12), pp.e1003405. ⟨10.1371/journal.pcbi.1003405⟩. ⟨inserm-02150166⟩
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