Publications

Articles de périodiques scientifiques

Ecarot T, Fraikin B, Lavoie L, McGilchrist M, Ethier J-F (2021) A Sensitive Data Access Model in Support of Learning Health Systems. Computers 10:25 . https://doi.org/10.3390/computers10030025 Cite Download
Toyoshima F (2021) Roles and their three facets: A foundational perspective. Applied Ontology Preprint:1–32 . https://doi.org/10.3233/AO-210244 Cite
Cumyn A, Dault R, Barton A, Cloutier A-M, Ethier J-F (2021) Citizens, Research Ethics Committee Members and Researchers' Attitude Toward Information and Consent for the Secondary Use of Health Data: Implications for Research Within Learning Health Systems. Journal of Empirical Research on Human Research Ethics 14 . https://doi.org/10.1177/1556264621992214 Cite Download
Abdoul C, Cros P, Coutier L, Hadchouel A, Neuraz A, Burgun A, Giovannini-Chami L, Drummond D (2020) Parents’ views on artificial intelligence for the daily management of childhood  asthma: a survey. J Allergy Clin Immunol Pract. https://doi.org/10.1016/j.jaip.2020.11.048 Cite
Czernichow S, Beeker N, Rives-Lange C, Guerot E, Diehl J-L, Katsahian S, Hulot J-S, Poghosyan T, Carette C, Jannot A-S (2020) 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 (Silver Spring) 28:2282–2289 . https://doi.org/10.1002/oby.23014 Cite
Dahl L, Katz A, Mcgrail K, Diverty B, Ethier J-F, Gavin F, Mcdonald J, Paprica P, Schull M, Walker J, Wu J (2020) The SPOR-Canadian Data Platform: a national initiative to facilitate data rich multi-jurisdictional research. 5:1–9 . https://doi.org/10.23889/ijpds.v5i1.1374 Cite Download
Neuraz A, Lerner I, Digan W, Paris N, Tsopra R, Rogier A, Baudoin D, Cohen KB, Burgun A, Garcelon N, Rance B (2020) Natural Language Processing for Rapid Response to Emergent Diseases: Case Study of  Calcium Channel Blockers and Hypertension in the COVID-19 Pandemic. J Med Internet Res 22:e20773 . https://doi.org/10.2196/20773 Cite
Bibault J-E, Xing L, Giraud P, El Ayachy R, Giraud N, Decazes P, Burgun A, Giraud P (2020) Radiomics: A primer for the radiation oncologist. Cancer Radiother 24:403–410 . https://doi.org/10.1016/j.canrad.2020.01.011 Cite
Neuraz A, Rance B, Garcelon N, Llanos LC, Burgun A, Rosset S (2020) The Impact of Specialized Corpora for Word Embeddings in Natural Langage  Understanding. Stud Health Technol Inform 270:432–436 . https://doi.org/10.3233/SHTI200197 Cite
Faviez C, Chen X, Garcelon N, Neuraz A, Knebelmann B, Salomon R, Lyonnet S, Saunier S, Burgun A (2020) Diagnosis support systems for rare diseases: a scoping review. Orphanet J Rare Dis 15:94 . https://doi.org/10.1186/s13023-020-01374-z Cite
Bourbonne V, Fournier G, Vallieres M, Lucia F, Doucet L, Tissot V, Cuvelier G, Hue S, Le Penn Du H, Perdriel L, Bertrand N, Staroz F, Visvikis D, Pradier O, Hatt M, Schick U (2020) External validation of an MRI-derived radiomics model to predict biochemical recurrence after surgery for high-risk prostate cancer. Cancers 12:814 . https://doi.org/10.3390/cancers12040814 Cite Download
Garcelon N, Burgun A, Salomon R, Neuraz A (2020) Electronic health records for the diagnosis of rare diseases. Kidney Int 97:676–686 . https://doi.org/10.1016/j.kint.2019.11.037 Cite
Zwanenburg A, Vallieres M, Abdalah MA, Aerts HJWL, Andrearczyk V, Apte A, Ashrafinia S, Bakas S, Beukinga RJ, Boellaard R, Bogowicz M, Boldrini L, Buvat I, Cook GJR, Davatzikos C, Depeursinge A, Desseroit M-C, Dinapoli N, Dinh CV, Echegaray S, El Naqa I, Fedorov AY, Gatta R, Gillies RJ, Goh V, Götz M, Guckenberger M, Ha SM, Hatt M, Isensee F, Lambin P, Leger S, Leijenaar RTH, Lenkowicz J, Lippert F, Losnegård A, Maier-Hein KH, Morin O, Müller H, Napel S, Nioche C, Orlhac F, Pati S, Pfaehler EAG, Rahmim A, Rao AUK, Scherer J, Siddique MM, Sijtsema NM, Socarras Fernandez J, Spezi E, Steenbakkers RJHM, Tanadini-Lang S, Thorwarth D, Troost EGC, Upadhaya T, Valentini V, van Dijk LV, van Griethuysen J, van Velden FHP, Whybra P, Richter C, Löck S (2020) The Image Biomarker Standardization Initiative: standardized quantitative radiomics for high-throughput image-based phenotyping. Radiology 191145 . https://doi.org/10.1148/radiol.2020191145 Cite Download
Chatterjee A, Vallieres M, Seuntjens J (2020) Overlooked pitfalls in multi-class machine learning classification in radiation oncology and how to avoid them. Physica Medica 70:96–100 . https://doi.org/10.1016/j.ejmp.2020.01.009 Cite
Boulet S, Ursino M, Thall P, Landi B, Lepère C, Pernot S, Burgun A, Taieb J, Zaanan A, Zohar S, Jannot A-S (2020) Integration of elicited expert information via a power prior in Bayesian variable  selection: Application to colon cancer data. Stat Methods Med Res 29:541–567 . https://doi.org/10.1177/0962280219841082 Cite
Nair JKR, Vallieres M, Mascarella MA, Sabbagh NE, Duchatellier CF, Zeitouni A, Shenouda G, Chankowsky J (2020) Magnetic resonance imaging texture analysis predicts recurrence in patients with nasopharyngeal carcinoma. Canadian Association of Radiologists Journal. https://doi.org/10.1016/j.carj.2019.06.009 Cite Download
Xi IL, Zhao Y, Wang R, Chang M, Purkayastha S, Chang K, Huang RY, Silva AC, Vallieres M, Habibollahi P, Fan Y, Zou B, Gade TP, Zhang PJ, Soulen MC, Zhang Z, Bai HX, Stavropoulos SW (2020) Deep learning to distinguish benign from malignant renal lesions based on routine MR imaging. Clin Cancer Res. https://doi.org/10.1158/1078-0432.CCR-19-0374 Cite Download
Yang DD, Baujat G, Neuraz A, Garcelon N, Messiaen C, Sandrin A, Cheron G, Burgun A, Pejin Z, Cormier-Daire V, Angoulvant F (2020) Healthcare trajectory of children with rare bone disease attending pediatric  emergency departments. Orphanet J Rare Dis 15:2 . https://doi.org/10.1186/s13023-019-1284-1 Cite
Zhao Y, Chang M, Wang R, Xi IL, Chang K, Huang RY, Vallieres M, Habibollahi P, Dagli MS, Palmer M, Zhang PJ, Silva AC, Yang L, Soulen MC, Zhang Z, Bai HX, Stavropoulos SW (2020) Deep learning based on MRI for differentiation of low- and high-grade in low-stage renal cell carcinoma. Journal of Magnetic Resonance Imaging. https://doi.org/10.1002/jmri.27153 Cite Download
Brat GA, Weber GM, Gehlenborg N, Avillach P, Palmer NP, Chiovato L, Cimino J, Waitman LR, Omenn GS, Malovini A, Moore JH, Beaulieu-Jones BK, Tibollo V, Murphy SN, Yi SL, Keller MS, Bellazzi R, Hanauer DA, Serret-Larmande A, Gutierrez-Sacristan A, Holmes JJ, Bell DS, Mandl KD, Follett RW, Klann JG, Murad DA, Scudeller L, Bucalo M, Kirchoff K, Craig J, Obeid J, Jouhet V, Griffier R, Cossin S, Moal B, Patel LP, Bellasi A, Prokosch HU, Kraska D, Sliz P, Tan ALM, Ngiam KY, Zambelli A, Mowery DL, Schiver E, Devkota B, Bradford RL, Daniar M, Daniel C, Benoit V, Bey R, Paris N, Serre P, Orlova N, Dubiel J, Hilka M, Jannot AS, Breant S, Leblanc J, Griffon N, Burgun A, Bernaux M, Sandrin A, Salamanca E, Cormont S, Ganslandt T, Gradinger T, Champ J, Boeker M, Martel P, Esteve L, Gramfort A, Grisel O, Leprovost D, Moreau T, Varoquaux G, Vie J-J, Wassermann D, Mensch A, Caucheteux C, Haverkamp C, Lemaitre G, Bosari S, Krantz ID, South A, Cai T, Kohane IS (2020) International electronic health record-derived COVID-19 clinical course profiles:  the 4CE consortium. NPJ Digit Med 3:109 . https://doi.org/10.1038/s41746-020-00308-0 Cite
Camirand Lemyre F, Desharnais B, Laquerre J, Morel M-A, Côté C, Mireault P, Skinner CD (2020) Qualitative threshold method validation and uncertainty evaluation: a theoretical framework and application to a 40 analytes LC-MS/MS method. Drug Testing and Analysis. https://doi.org/10.1002/dta.2867 Cite Download
Arsenault C, Camirand Lemyre F, Martin P, Lévesque S (2019) Bayesian Evaluation of Solana HSV 1+2/VZV Assay Compared to Viral Culture and Commercial PCR Assay for Cutaneous or Mucocutaneous Specimens. Journal of Clinical Microbiology 58: . https://doi.org/10.1128/JCM.01552-19 Cite
Cumyn A, Barton A, Dault R, Cloutier A-M, Jalbert R, Ethier J-F (2019) Informed consent within a learning health system: A scoping review. Learning Health Systems. https://doi.org/10.1002/lrh2.10206 Cite Download
Chen X, Garcelon N, Neuraz A, Billot K, Lelarge M, Bonald T, Garcia H, Martin Y, Benoit V, Vincent M, Faour H, Douillet M, Lyonnet S, Saunier S, Burgun A (2019) Phenotypic similarity for rare disease: Ciliopathy diagnoses and subtyping. J Biomed Inform 100:103308 . https://doi.org/10.1016/j.jbi.2019.103308 Cite
Burgun A (2019) [Basis and perspectives of artificial intelligence in radiation therapy]. Cancer Radiother 23:913–916 . https://doi.org/10.1016/j.canrad.2019.08.005 Cite
Looten V, Kong Win Chang L, Neuraz A, Landau-Loriot M-A, Vedie B, Paul J-L, Mauge L, Rivet N, Bonifati A, Chatellier G, Burgun A, Rance B (2019) 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. Comput Methods Programs Biomed 181:104825 . https://doi.org/10.1016/j.cmpb.2018.12.030 Cite
Ibrahim A, Vallieres M, Woodruff H, Primakov S, Beheshti M, Keek S, Refaee T, Sanduleanu S, Walsh S, Morin O, Lambin P, Hustinx R, Mottaghy FM (2019) Radiomics analysis for clinical decision support in nuclear medicine. Seminars in Nuclear Medicine 49:438–449 . https://doi.org/10.1053/j.semnuclmed.2019.06.005 Cite Download
Digan W, Wack M, Looten V, Neuraz A, Burgun A, Rance B (2019) Evaluating the Impact of Text Duplications on a Corpus of More than 600,000 Clinical  Narratives in a French Hospital. Stud Health Technol Inform 264:103–107 . https://doi.org/10.3233/SHTI190192 Cite
Neuraz A, Looten V, Rance B, Daniel N, Garcelon N, Llanos LC, Burgun A, Rosset S (2019) Do You Need Embeddings Trained on a Massive Specialized Corpus for Your Clinical  Natural Language Processing Task? Stud Health Technol Inform 264:1558–1559 . https://doi.org/10.3233/SHTI190533 Cite
Arnoux-Guenegou A, Girardeau Y, Chen X, Deldossi M, Aboukhamis R, Faviez C, Dahamna B, Karapetiantz P, Guillemin-Lanne S, Lillo-Le Louët A, Texier N, Burgun A, Katsahian S (2019) The Adverse Drug Reactions From Patient Reports in Social Media Project: Protocol  for an Evaluation Against a Gold Standard. JMIR Res Protoc 8:e11448 . https://doi.org/10.2196/11448 Cite
Morin O, Chen WC, Nassiri F, Susko M, Magill ST, Vasudevan HN, Wu A, Vallieres M, Gennatas ED, Valdes G, Pekmezci M, Alcaide-Leon P, Choudhury A, Interian Y, Mortezavi S, Turgutlu K, Bush NAO, Solberg TD, Braunstein SE, Sneed PK, Perry A, Zadeh G, McDermott MW, Villanueva-Meyer JE, Raleigh DR (2019) Integrated models incorporating radiologic and radiomic features predict meningioma grade, local failure, and overall survival. Neuro Oncol Adv 1: . https://doi.org/10.1093/noajnl/vdz011 Cite Download
Wei L, Rosen B, Vallieres M, Chotchutipan T, Mierzwa M, Eisbruch A, El Naqa I (2019) Automatic recognition and analysis of metal streak artifacts in head and neck computed tomography for radiomics modeling. Physics and Imaging in Radiation Oncology 10:49–54 . https://doi.org/10.1016/j.phro.2019.05.001 Cite Download
Zhou H, Chang K, Bai HX, Xiao B, Su C, Bi WL, Zhang PJ, Senders JT, Vallieres M, Kavouridis VK, Boaro A, Arnaout O, Yang L, Huang RY (2019) Machine learning reveals multimodal MRI patterns predictive of isocitrate dehydrogenase and 1p/19q status in diffuse low- and high-grade gliomas. J Neurooncol 142:299–307 . Cite Download
Lucia F, Visvikis D, Vallieres M, Desseroit M-C, Miranda O, Robin P, Bonaffini PA, Alfieri J, Masson I, Mervoyer A, Reinhold C, Pradier O, Hatt M, Schick U (2019) External validation of a combined PET and MRI radiomics model for prediction of recurrence in cervical cancer patients treated with chemoradiotherapy. Eur J Nucl Med Mol Imaging 46:864–877 . Cite Download
Durivage A, Le Templier G, Cumyn A, Sauvé N (2019) Pregnancy in a woman with latent myeloproliferative neoplasm induced chronic portal vein thrombosis, portal cavernoma, and gastric varices. Case Rep Obstet Gynecol 2019: . https://doi.org/10.1155/2019/5702983 Cite Download
Bussy S, Veil R, Looten V, Burgun A, Gaïffas S, Guilloux A, Ranque B, Jannot A-S (2019) Comparison of methods for early-readmission prediction in a high-dimensional  heterogeneous covariates and time-to-event outcome framework. BMC Med Res Methodol 19:50 . https://doi.org/10.1186/s12874-019-0673-4 Cite
Upadhaya T, Vallieres M, Chatterjee A, Lucia F, Bonaffini PA, Masson I, Mervoyer A, Reinhold C, Schick U, Seuntjens J, Rest CCL, Visvikis D, Hatt M (2019) Comparison of radiomics models built through machine learning in a multicentric context with Independent testing: identical data, similar algorithms, different methodologies. IEEE Transactions on Radiation and Plasma Medical Sciences 3:192–200 . https://doi.org/10.1109/TRPMS.2018.2878934 Cite Download
Chatterjee A, Vallieres M, Dohan A, Levesque IR, Ueno Y, Saif S, Reinhold C, Seuntjens J (2019) Creating robust predictive radiomic models for data from independent institutions using normalization. IEEE Transactions on Radiation and Plasma Medical Sciences 3:210–215 . https://doi.org/10.1109/TRPMS.2019.2893860 Cite Download
Chatterjee A, Vallieres M, Dohan A, Levesque IR, Ueno Y, Bist V, Saif S, Reinhold C, Seuntjens J (2019) An empirical approach for avoiding false discoveries when applying high-dimensional radiomics to small datasets. IEEE Transactions on Radiation and Plasma Medical Sciences 3:201–209 . https://doi.org/10.1109/TRPMS.2018.2880617 Cite Download
Diamant A, Chatterjee A, Vallieres M, Shenouda G, Seuntjens J (2019) Deep learning in head & neck cancer outcome prediction. Scientific Reports 9:1–10 . https://doi.org/10.1038/s41598-019-39206-1 Cite Download
Djian J, Lellouch AG, Botter C, Levy J, Burgun A, Hivelin M, Lantieri L (2019) [Clinical photography by smartphone in plastic surgery and protection of personal  data: Development of a secured platform and application on 979 patients]. Ann Chir Plast Esthet 64:33–43 . https://doi.org/10.1016/j.anplas.2018.06.005 Cite
Cohen S, Jannot A-S, Iserin L, Bonnet D, Burgun A, Escudié J-B (2019) Accuracy of claim data in the identification and classification of adults with  congenital heart diseases in electronic medical records. Arch Cardiovasc Dis 112:31–43 . https://doi.org/10.1016/j.acvd.2018.07.002 Cite
Bouezmarni T, Camirand Lemyre F, Quessy J-F (2019) On the large-sample behavior of two estimators of the conditional copula under serially dependent data. Metrika 82:823–841 . https://doi.org/10.1007/s00184-019-00711-y Cite
Khnaisser C, Lavoie L, Fraikin B, Barton A, Burgun A, Ethier J-F (2019) Advanced ontology-driven relational database generation for heterogeneous data : Ontorelα. Journal on Data Semantics (JODS) [Submitted 2019-09-20] Cite
Khnaisser C, Looten V, Lavoie L, Ethier J-F, Burgun A (2019) Combining ontology and temporal databases for data reuse: the example of hospital organizational structures. International Journal of Medical Informatics (IJMI) [To be publised] Cite
Bourbonne V, Vallieres M, Lucia F, Doucet L, Visvikis D, Tissot V, Pradier O, Hatt M, Schick U (2019) MRI-derived radiomics to guide post-operative management for high-risk prostate cancer. Front Oncol 9: . https://doi.org/10.3389/fonc.2019.00807 Cite Download
Giraud P, Giraud P, Gasnier A, El Ayachy R, Kreps S, Foy J-P, Durdux C, Huguet F, Burgun A, Bibault J-E (2019) Radiomics and Machine Learning for Radiotherapy in Head and Neck Cancers. Front Oncol 9:174 . https://doi.org/10.3389/fonc.2019.00174 Cite
Bouezmarni T, Camirand Lemyre F, El Ghouch A (2019) Estimation of a bivariate conditional copula when a variable is subject to random right censoring. Electronic Journal of Statistics 13:5044–5087 . https://doi.org/10.1214/19-EJS1645 Cite
Bouezmarni T, Camirand Lemyre F, Quessy J-F (2019) Inference on local causality and tests of non-causality in time series. Electronic Journal of Statistics 13:4121–4156 . https://doi.org/10.1214/19-EJS1623 Cite Download
Cumyn A, Card SE, Gibson P (2019) Mapping of essential content of an obstetric medicine curriculum from the perspective of two groups. Canadian Journal of General Internal Medicine 14:13–20 Cite Download
Belzile M, Pouliot A, Cumyn A, Cote AM (2018) Renal physiology and fluid and electrolyte disorders in pregnancy. Best Pract Res Clin Obstet Gynaecol. https://doi.org/10.1016/j.bpobgyn.2018.11.008 Cite
Barma MA, Soiza RL, Donnan PT, McGilchrist MM, Frost H, Witham MD (2018) Serum sodium level variability as a prognosticator in older adults. Scand J Clin Lab Invest 78:632–638 . https://doi.org/10.1080/00365513.2018.1543893 Cite Download
Gruson D, Petrelluzzi J, Mehl J, Burgun A, Garcelon N (2018) [Ethical, legal and operational issues of artificial intelligence]. Rev Prat 68:1145–1148 Cite
Morin O, Vallieres M, Jochems A, Woodruff HC, Valdes G, Braunstein SE, Wildberger JE, Villanueva-Meyer JE, Kearney V, Yom SS, Solberg TD, Lambin P (2018) A deep look into the future of quantitative imaging in oncology: a statement of working principles and proposal for change. International Journal of Radiation Oncology*Biology*Physics 102:1074–1082 . https://doi.org/10.1016/j.ijrobp.2018.08.032 Cite Download
Bibault J-E, Giraud P, Housset M, Durdux C, Taieb J, Berger A, Coriat R, Chaussade S, Dousset B, Nordlinger B, Burgun A (2018) Author Correction: Deep Learning and Radiomics predict complete response after  neo-adjuvant chemoradiation for locally advanced rectal cancer. Sci Rep 8:16914 . https://doi.org/10.1038/s41598-018-35359-7 Cite
Cumyn A, Ouellet K, Côté A-M, Francoeur C, St-Onge C (2018) Role of researchers in the ethical conduct of research: A discourse analysis from different stakeholder perspectives. Ethics & Behavior 0:1–16 . Cite
Madar H, Baillargeon J-P, Brown C, Langlois M-F (2018) Improved follow up and monitoring for diabetes through an integrated community-based program for the prevention and management of chronic diseases. Canadian Journal of Diabetes 42(5): S46 Cite
Karunagaran R, Coghlan C, Tran D, Tung TT, Burgun A, Doonan C, Losic D (2018) A Facile Synthesis Procedure for Sulfonated Aniline Oligomers with Distinct  Microstructures. Materials (Basel) 11: . https://doi.org/10.3390/ma11091755 Cite
Bibault J-E, Giraud P, Housset M, Durdux C, Taieb J, Berger A, Coriat R, Chaussade S, Dousset B, Nordlinger B, Burgun A (2018) Deep Learning and Radiomics predict complete response after neo-adjuvant  chemoradiation for locally advanced rectal cancer. Sci Rep 8:12611 . https://doi.org/10.1038/s41598-018-30657-6 Cite
Dault R, Blais L, Vanasse A, Farand P, Perreault S, Letemplier G, Beauchesne M-F (2018) Patients' satisfaction with anticoagulant treatment for venous thromboembolism. Canadian Journal of General Internal Medicine 13:6–14 . https://doi.org/10.22374/cjgim.v13i3.270 Cite
Cohen S, Gilutz H, Marelli AJ, Iserin L, Benis A, Bonnet D, Burgun A (2018) Administrative health databases for addressing emerging issues in adults with CHD: a  systematic review. Cardiol Young 28:844–853 . https://doi.org/10.1017/S1047951118000446 Cite
Garcelon N, Neuraz A, Salomon R, Bahi-Buisson N, Amiel J, Picard C, Mahlaoui N, Benoit V, Burgun A, Rance B (2018) Next generation phenotyping using narrative reports in a rare disease clinical data  warehouse. Orphanet J Rare Dis 13:85 . https://doi.org/10.1186/s13023-018-0830-6 Cite
Verheij RA, Curcin V, Delaney BC, McGilchrist MM (2018) Possible sources of bias in primary care electronic health record data use and reuse. J Med Internet Res 20:e185 . https://doi.org/10.2196/jmir.9134 Cite
Huxley MT, Burgun A, Ghodrati H, Coghlan CJ, Lemieux A, Champness NR, Huang DM, Doonan CJ, Sumby CJ (2018) Protecting-Group-Free Site-Selective Reactions in a Metal-Organic Framework Reaction  Vessel. J Am Chem Soc 140:6416–6425 . https://doi.org/10.1021/jacs.8b02896 Cite
Vallieres M, Serban M, Benzyane I, Ahmed Z, Xing S, El Naqa I, Levesque IR, Seuntjens J, Freeman CR (2018) Investigating the role of functional imaging in the management of soft-tissue sarcomas of the extremities. Physics and Imaging in Radiation Oncology 6:53–60 . https://doi.org/10.1016/j.phro.2018.05.003 Cite Download
Ethier J-F, McGilchrist M, Barton A, Cloutier A-M, Curcin V, Delaney BC, Burgun A (2018) The TRANSFoRm project: Experience and lessons learned regarding functional and  interoperability requirements to support primary care. Learn Health Syst 2:e10037 . https://doi.org/10.1002/lrh2.10037 Cite
Deborde T, Amar L, Bobrie G, Postel-Vinay N, Battaglia C, Tache A, Chedid A, Dhib M-M, Chatellier G, Plouin P-F, Burgun A, Azizi M, Jannot A-S (2018) Sex differences in antihypertensive treatment in France among 17 856 patients in a  tertiary hypertension unit. J Hypertens 36:939–946 . https://doi.org/10.1097/HJH.0000000000001607 Cite
Garcelon N, Neuraz A, Salomon R, Faour H, Benoit V, Delapalme A, Munnich A, Burgun A, Rance B (2018) A clinician friendly data warehouse oriented toward narrative reports: Dr.  Warehouse. J Biomed Inform 80:52–63 . https://doi.org/10.1016/j.jbi.2018.02.019 Cite
Zapletal E, Bibault J-E, Giraud P, Burgun A (2018) Integrating Multimodal Radiation Therapy Data into i2b2. Appl Clin Inform 9:377–390 . https://doi.org/10.1055/s-0038-1651497 Cite
Abdellaoui R, Foulquié P, Texier N, Faviez C, Burgun A, Schück S (2018) Detection of Cases of Noncompliance to Drug Treatment in Patient Forum Posts: Topic  Model Approach. J Med Internet Res 20:e85 . https://doi.org/10.2196/jmir.9222 Cite
Sun B, Southam HM, Butler JA, Poole RK, Burgun A, Tarzia A, Keene FR, Collins JG (2018) Synthesis, isomerisation and biological properties of mononuclear ruthenium  complexes containing the bis[4(4’-methyl-2,2’-bipyridyl)]-1,7-heptane ligand. Dalton Trans 47:2422–2434 . https://doi.org/10.1039/c7dt04595f Cite
Vallieres M, Zwanenburg A, Badic B, Rest CCL, Visvikis D, Hatt M (2018) Responsible radiomics research for faster clinical translation. J Nucl Med 59:189–193 . https://doi.org/10.2967/jnumed.117.200501 Cite Download
Bibault J-E, Zapletal E, Rance B, Giraud P, Burgun A (2018) Labeling for Big Data in radiation oncology: The Radiation Oncology Structures  ontology. PLoS One 13:e0191263 . https://doi.org/10.1371/journal.pone.0191263 Cite
Khnaisser C, Lavoie L, Burgun A, Ethier J-F (2018) Generating relational database using ontology review : Issues, challenges and trends. International Journal of Advanced Computer Science and Applications (IJACSA) 9: . https://doi.org/10.14569/IJACSA.2018.090620 Cite Download
Ethier J-F, Barton A, Taseen R (2018) An ontological analysis of drug prescriptions. Applied Ontology 13:273–294 . https://doi.org/10.3233/AO-180202 Cite Download
Van Praagh S, Menard J-F, Montreuil M, Noronha C, Talwar V, Carnevale FA (2018) Learning from JJ: An interdisciplinary conversation about child welfare, health care, and law. McGill JL & Health 12:123 Cite
Montreuil M, Menard J-F, Carnevale FA (2018) Where vulnerability can become a strength: A focused ethnography of a community program for youth exposed to violence. Children and Youth Services Review 91:390–397 Cite
Jantzen R, Rance B, Katsahian S, Burgun A, Looten V (2018) The Need of an Open Data Quality Policy: The Case of the “Transparency - Health”  Database in the Prevention of Conflict of Interest. Stud Health Technol Inform 247:611–615 Cite
Karapetiantz P, Bellet F, Audeh B, Lardon J, Leprovost D, Aboukhamis R, Morlane-Hondère F, Grouin C, Burgun A, Katsahian S, Jaulent M-C, Beyens M-N, Lillo-Le Louët A, Bousquet C (2018) Descriptions of Adverse Drug Reactions Are Less Informative in Forums Than in the  French Pharmacovigilance Database but Provide More Unexpected Reactions. Front Pharmacol 9:439 . https://doi.org/10.3389/fphar.2018.00439 Cite
Chen X, Faviez C, Schuck S, Lillo-Le-Louët A, Texier N, Dahamna B, Huot C, Foulquié P, Pereira S, Leroux V, Karapetiantz P, Guenegou-Arnoux A, Katsahian S, Bousquet C, Burgun A (2018) Mining Patients’ Narratives in Social Media for Pharmacovigilance: Adverse Effects  and Misuse of Methylphenidate. Front Pharmacol 9:541 . https://doi.org/10.3389/fphar.2018.00541 Cite
Vanasse A, Courteau M, Ethier J-F (2018) The 6W multidimensional model of care trajectories for patients with chronic ambulatory care sensitive conditions and hospital readmissions. Public Health 157:53–61 . https://doi.org/10.1016/j.puhe.2018.01.007 Cite Download

Chapitres de livres

Barton A (2020) L'ontologie appliquée : un dialogue entre métaphysique analytique et traitement de l'information. In: Lacroix A (ed) La philosophie pratique : un passage obligé pour penser la société. Presses de l'Université Laval, pp 87–108 Cite

Actes de colloques

Madar H, Brown C, Baillargeon J-P, Langlois M-F (2021) Programme Agir Sur Sa Santé : Effets sur la qualité des soins des patients à risque ou atteints de maladies chroniques cardiométaboliques dans les soins de première ligne en Estrie. Congrès annuel du Réseau de recherche en santé cardiométabolique, diabète et obésité/ Société québécoise de lipidologie, de nutrition et de métabolisme Cite
Toyoshima F, Barton A, Ethier J-F (2020) Functional Parthood: A Dispositional Perspective. In: Proceedings of the 6th Joint Ontology Workshops (JOWO 2020). CEUR Workshop Proceedings, Virtual & Bozen-Bolzano, Italy, p 8 Cite Download
Barton A, Toyoshima F, Vieu L, Fabry P, Ethier J-F (2020) The Mereological Structure of Informational Entities. In: Brodaric B, Neuhaus F (eds) Frontiers in Artificial Intelligence and Applications. IOS Press Cite Download
Toyoshima F (2020) Foundations for Ontology of Persistence: Beyond Talk of Temporal Parts. In: Brodaric B, Neuhaus F (eds) Frontiers in Artificial Intelligence and Applications. IOS Press, pp 17–31 Cite
Toyoshima F, Barton A, Grenier O (2020) Foundations for an Ontology of Belief, Desire and Intention. In: Brodaric B, Neuhaus F (eds) Frontiers in Artificial Intelligence and Applications. IOS Press, pp 140–154 Cite
Barton A, Toyoshima F, Ethier J-F (2020) Clinical Documents and Their Parts. In: Hastings J, Loebe F (eds) ICBO|ODLS 2020 International Conference on Biomedical Ontologies 2020. CEUR-WS.org, Bolzano (virtual event), Italy, p A.1-11 Cite Download
Fabry P, Barton A, Ethier J-F (2020) An Ontological Representation of Sex and Gender Information. In: Hastings J, Loebe F (eds) ICBO|ODLS 2020 International Conference on Biomedical Ontologies 2020. CEUR-WS.org, Bolzano, Italy, p O.1-5 Cite Download
Fabry P, Barton A, Ethier J-F (2020) QUESTO – An ontology for questionnaire. In: ICBO|ODLS 2020 International Conference on Biomedical Ontologies 2020. CEUR-WS.org, Bolzano, Italy, p B.1-12 Cite Download
Ecarot T, Fraikin B, Ouellet F, Lavoie L, McGilchrist M, Ethier J-F (2020) Sensitive Data Exchange Protocol Suite for Healthcare. In: IEEE Symposium on Computers and Communications. Rennes, France Cite Download
Barton A, Toyoshima F, Ethier J-F (2020) Approaching Roles with Affordances. In: Proceedings of the Joint Ontology Workshops. CEUR Workshop Proceedings, Virtual & Bozen-Bolzano, Italy, p 14 Cite Download
Ecarot T, Dussault S, Souid A, Lavoie L, Ethier J-F (2020) An AppArmor For Heath Data Access Control: Assessing Risks and Benefits. In: Proceedings of the  2020 Seventh International Conference on Internet of Things: Systems, Management and Security (IOTSMS). Paris Cite Download
Toyoshima F, Barton A (2019) Linking image schemas with affordances: An ontological approach. In: Barton A, Seppälä S, Porello D (eds) Proceedings of the 5th Joint Ontology Workshops (JOWO 2019). CEUR Workshop Proceedings, Graz, Austria, pp 1–9 Cite
Barton A, Seppälä S, Porello D (2019) Proceedings of the Joint Ontology Workshops 2019 - Episode V: The Styrian Autumn of Ontology. In: JOWO 2019 The Joint Ontology Workshops. CEUR Workshop Proceedings, Graz, Autriche Cite
Toyoshima F, Barton A (2019) A formal representation of affordances as reciprocal dispositions. In: Kutz O, Hedblom MM (eds) Proceedings of TriCoLore 2018: The 7th International Workshop on Computational Creativity, Concept Invention, and General Intelligence (C3GI 2018), The 4th Image Schema Day (ISD4), and SCORE. CEUR Workshop Proceedings, Bolzano, Italie, pp 1–9 Cite
Barton A, Duncan W, Toyoshima F, Ethier J-F (2018) First steps towards an ontology of belief. In: The Joint Ontology Workshops JOWO 2018. Cape Town, Afrique du Sud Cite Download
Barton A, Grenier O, Ethier J-F (2018) The identity and mereology of pathological dispositions. In: Jaiswal P, Cooper L, Haendel MA, Mungall CJ (eds) Proceedings of the 9th International Conference on Biological Ontology (ICBO 2018). CEUR Workshop Proceedings, Corvallis, Oregon, États-Unis, pp 1–6 Cite
Barton A, Grenier O, Jansen L, Ethier J-F (2018) The identity of dispositions. In: Borgo S, Hitzler P, Kutz O (eds) Formal Ontology in Information Systems. Proceedings of the 10th International Conference (FOIS 2018). IOS Press, Cape Town, Afrique du Sud, pp 113–126 Cite Download Download
Barton A, Jansen L, Ethier J-F (2018) A taxonomy of disposition-parthood. In: Galton A, Neuhaus F (eds) Proceedings of the Joint Ontology Workshops 2017, CEUR Workshop proceedings. CEUR Workshop Proceedings, Bolzano, Italie, pp 1–10 Cite Download
Barton A, Jansen L, Rosier A, Ethier J-F (2018) What is a risk? A formal representation of risk of stroke for people with atrial fibrillation. In: Proceedings of the 8th International Conference on Biomedical Ontology. Newcastle, UK, pp 1–6 Cite Download
Madar H, Brown C, Baillargeon J-P, Langlois M-F (2018) Improved obesity screening and management using integrated community-based chronic diseases program. Nashville, Tennessee, USA Cite
Vallieres M, Chatterjee A, Lucia F, Bourbonne V, Bonaffini P, Masson I, Mervoyers A, Reinhold C, Visvikis D, Schick U, Seuntjens J, Morin O, Hatt M (2018) Investigating the complementarity of radiomics and clinical information for predicting treatment failure in multiple cancer types. In: Medical Physics Cite
Vallieres M, Visvikis D, Hatt M (2018) Dependency of a validated radiomics signature and potential corrections. In: Journal of Nuclear Medicine Cite

Présentations

Vanasse A, Dault R, Cloutier A-M, Benigeri M, Ethier J-F (2019) Validated case selection algorithms to identify 7 ambulatory case sensitive conditions Cite Download
Vanasse A, Boivin A, Dumez V, Ethier J-F, Leblanc A, Légaré F, Pluye P, Belec G, Pelletier J-G (2019) A learning health system oriented toward care trajectories Cite Download
Vanasse A, Ethier J-F, Dault R, Benigeri M, Cloutier A-M (2019) Validated case selection algorithms to identify 7 ambulatory care sensitive conditions Cite
Fabry P, Barton A, Ethier J-F (2019) LABO: an ontology for laboratory test prescription and reporting Cite Download Download
Vallieres M (2019) Radiomics: the Image Biomarker Standardisation Initiative (IBSI) Cite
Vallieres M (2019) MEDomicsLab: an open-source computation platform for integrative data modeling in medicine Cite
Vallieres M (2019) Radiomics: the Image Biomarker Standardisation Initiative (IBSI) Cite
Vallieres M (2019) MEDomics: synergie entre analyse d’images médicales, apprentissage automatique, apprentissage profond, traitement automatique des langues naturelles et apprentissage distribué Cite
Vallieres M (2019) Radiomics: the Image Biomarker Standardisation Initiative (IBSI) Cite
Vanasse A, Benigeri M, Courteau J, Dorais M, Ethier J-F (2018) Linking canadian community health surveys to administrative data in Quebec: A unique opportunity for health care trajectories research on ambulatory care sensitive conditions Cite
Ecarot T (2018) Assurer la sécurité des données de bout en bout durant le cycle de vie d’une application Cite
Beaudoin A-A, Dault R, Barton A, Cumyn A, Cloutier A-M, Ethier J-F (2018) Initiative CLARET: consentement pour l’utilisation secondaire des données médicales en recherche Cite
Ethier J-F (2018) Quelles ontologies pour un système de santé apprenant ?​ Cite Download
Dault R, Barton A, Cumyn A, Cloutier A-M, Ethier J-F (2018) Caractériser le processus de consentement à la recherche dans un système de santé apprenant Cite Download
Cloutier A-M, Dussault S, Lavoie L, Vanasse A, Ethier J-F (2018) Soutenir l’exploitation sécuritaire et transparente des dossiers médicaux électroniques au Québec avec PARS3 Cite Download Download
Dault R, Barton A, Cumyn A, Cloutier A-M, Ethier J-F (2018) Caractériser le processus de consentement à la recherche dans un système de santé apprenant Cite Download
Ethier J-F (2018) Learning health systems supporting primary care: Lessons learned and opportunities Cite Download
Ethier J-F (2018) Plateforme apprenante pour la recherche en santé et services sociaux — PARS3 — Learning health and social services research platform Cite
Ethier J-F (2018) Plateforme apprenante pour la recherche en santé et services sociaux — PARS3 Cite
Ethier J-F (2018) Plateforme apprenante pour la recherche en santé et services sociaux — PARS3 Cite
Vallieres M (2018) Investigating the complementarity of radiomics and clinical information for predicting treatment failure in multiple cancer types Cite
Vallieres M (2018) Radiomics in MRI: Getting started Cite
Vallieres M (2018) Introduction to convolutional neural networks (CNNs) Cite
Vallieres M (2018) Radiomics: the Image Biomarker Standardisation Initiative (IBSI) Cite
Ethier J-F (2018) Learning Health Systems: experience and future for primary care Cite

Rapports

Zwanenburg A, Leger S, Vallieres M, Löck S (2020) Image biomarker standardisation initiative Cite Download
Khnaisser C, Lavoie L, Fraikin B, Barton A, Burgun A, Ethier J-F (2019) Generating a relational database for heterogeneous data using an ontology Cite Download
Beaulieu M-D, Cloutier A-M, Dault R, Ethier J-F, Goetghebeur M, Khanji C, Roy D, Vanasse A (2018) Utilisation des données cliniques issues des dossiers médicaux électroniques à des fins de recherche et d’amélioration continue de la qualité des soins et services de première ligne. Unité Soutient SRAP du Québec et INESSS Cite Download

Thèses et mémoires

Madar H (2020) Effets du programme " Agir Sur Sa Santé " sur la qualité des soins des patients à risque ou atteints de maladies chroniques cardiométaboliques dans les Centres de santé et de services sociaux de l'Estrie. Sherbrooke Cite
Vallieres M (2018) Radiomics: Enabling Factors Towards Precision Medicine. Thèse de doctorat, Université McGill Cite Download