BITEM Biblio

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Miscellaneous
Gobeill J, Pasche E, Teodoro D, Ruch P. Simple Pre and Post Processing Strategies for Patent Searching in CLEF Intellectual Property Track 2009. Multilingual Information Access Evaluation I. Text Retrieval Experiments. 2010 ;6241:444–451.
Journal Article
Pasche E, Gobeill J, Teodoro D, Vishnyakova D, Gaudinat A, Ruch P, Lovis C. Using multimodal mining to drive clinical guidelines development. Studies in health technology and informatics. 2011 ;169:477-81.PDF icon UsingMultimodal_2011.pdf (206.92 KB)
Pasche E, Gobeill J, Teodoro D, Gaudinat A, Vishnyakova D, Lovis C, Ruch P. A user-friendly tool for medical-related patent retrieval. Studies in health technology and informatics. 2012 ;174:121-5.PDF icon userfriendly_2012.pdf (621.48 KB)
Teodoro D, Knafou J, Naderi N, Pasche E, Gobeill J, Arighi CN, Ruch P. UPCLASS: a deep learning-based classifier for UniProtKB entry publications. Database [Internet]. 2020 ;2020. Available from: https://doi.org/10.1093/database/baaa026
Gobeill J, Teodoro D, Pasche E, Ruch P. Report on the trec 2009 experiments: Chemical ir track. the Eighteenth Text REtrieval Conference (TREC-18). 2009 .PDF icon Report_on_the_trec_2009_experiments_Chem.pdf (426.58 KB)
Pasche E, Teodoro D, Gobeill J, Ruch P, Lovis C. QA-driven guidelines generation for bacteriotherapy. AMIA .. Annual Symposium proceedings / AMIA Symposium. AMIA Symposium. 2009 ;2009:509-13.PDF icon QAdriven_2009.pdf (163.46 KB)
Teodoro D, Sundvall E, Junior MJoão, Ruch P, Freire SMiranda. ORBDA: An openEHR benchmark dataset for performance assessment of electronic health record servers. PloS one. 2018 ;13:e0190028.PDF icon journal.pone_.0190028.pdf (3.18 MB)
Teodoro D, Choquet R, Schober D, Mels G, Pasche E, Ruch P, Lovis C. Interoperability driven integration of biomedical data sources. Stud Health Technol Inform. 2011 ;169:185-189.PDF icon DTMIE2011.pdf (525.97 KB)
Ouagne D, Nadah N, Schober D, Choquet R, Teodoro D, Colaert D, Schulz S, Jaulent MC, Daniel C. Ensuring HL7-based information model requirements within an ontology framework. Studies in health technology and informatics. 2010 ;160:912.PDF icon DOMEDINFO2009.pdf (633.39 KB)
Schober D, Boeker M, Bullenkamp J, Huszka C, Depraetere K, Teodoro D, Nadah N, Choquet R, Daniel C, Schulz S. The DebugIT core ontology: semantic integration of antibiotics resistance patterns. Stud Health Technol Inform [Internet]. 2010 ;160:1060-1064. Available from: http://www.hubmed.org/fulltext.cgi?uids=20841846PDF icon DSMEDINFO2010.pdf (421.84 KB)
Lovis C, Teodoro D, Pasche E, Ruch P, Colaert D, Stroetmann K. DebugIT: building a European distributed clinical data mining network to foster the fight against microbial diseases. Studies in health technology and informatics. 2009 ;148:50-9.
Pasche E, Gobeill J, Mottin L, Mottaz A, Teodoro D, Van Rijen P, Ruch P. Customizing a Variant Annotation-Support Tool: an Inquiry into Probability Ranking Principles for TREC Precision Medicine. TREC 2017 Proceedings [Internet]. 2018 . Available from: https://trec.nist.gov/pubs/trec26/papers/BiTeM-PM.pdfPDF icon BiTeM-PM-2017.pdf (318.65 KB)
Teodoro D, Pasche E, Vishnyakova D, De Vloed B, Depraetere K, Ruch P, Lovis C. A cross-site antimicrobial resistance surveillance system using semantic web technologies. BMC Proceedings [Internet]. 2011 ;5:O35. Available from: http://www.biomedcentral.com/1753-6561/5/S6/O35
Buchmuller O, Bonacorsi D, Fanzago F, Gowdy S, Kreuzer P, Malgeri L, Mankel R, Metson S, Panzer-Steindel B, Afonso Sanches J, et al. The CMS CERN Analysis Facility (CAF). Journal of Physics: Conference Series. 2010 ;219:052022.PDF icon The CMS CERN Analysis Facility (CAF).pdf (933.69 KB)
Teodoro D, Pasche E, Gobeill J, Emonet S, Ruch P, Lovis C. Building a transnational biosurveillance network using semantic web technologies: requirements, design, and preliminary evaluation. Journal of Medical Internet Research [Internet]. 2012 ;14:e73. Available from: http://www.jmir.org/2012/3/e73/
Gobeill J, Gaudinat A, Pasche E, Teodoro D, Vishnyakova D, Ruch P. BiTeM site report for TREC Chemistry 2010: Impact of Citations Feedback for Patent Prior Art Search and Chemical Compounds Expansion for Ad Hoc Retrieval. 2010 .
Gobeill J, Gaudinat A, Pasche E, Teodoro D, Vishnyakova D, Ruch P. BiTeM group report for TREC Medical Records Track 2011. 2011 .PDF icon RUCH_BitemGroupeTRECmedical2011.pdf (285.04 KB)
Teodoro D, Choquet R, Pasche E, Gobeill J, Daniel C, Ruch P, Lovis C. Biomedical data management: a proposal framework. Studies in health technology and informatics. 2009 ;150:175-9.PDF icon DTMIE2009.pdf (434.81 KB)
Gobeill J, Pasche E, Teodoro D, Ehrler F, Ruch P. BIND: Biomedical Novelty Detection. Journée de la recherche HEG 2009. 2009 :47.
Pasche E, Teodoro D, Gobeill J, Ruch P, Lovis C. Automatic medical knowledge acquisition using question-answering. Studies in health technology and informatics. 2009 ;150:569-73.PDF icon AutomaticMedical_2009.pdf (189.19 KB)
Pasche E, Gobeill J, Teodoro D, Vishnyakova D, Huttner A, Ruch P, Lovis C. Assister la création de guides de bonnes pratiques par des techniques de recherche d’information. Swiss Medical Informatics [Internet]. 2012 ;28. Available from: http://157.161.181.107/smi/index.php/smiojs/article/view/15PDF icon assistercreation_2012.pdf (356.21 KB)
Pasche E, Ruch P, Teodoro D, Huttner A, Harbarth S, Gobeill J, Wipfli R, Lovis C. Assisted Knowledge Discovery for the Maintenance of Clinical Guidelines. PLoS ONE [Internet]. 2013 ;8:e62874. Available from: http://dx.doi.org/10.1371%2Fjournal.pone.0062874
Pasche E, Gobeill J, Teodoro D, Gaudinat A, Vishnykova D, Lovis C, Ruch P. An advanced search engine for patent analytics in medicinal chemistry. Studies in health technology and informatics. 2012 ;180:204-9.PDF icon advancedsearchengine_2012.pdf (632.5 KB)
Conference Proceedings
Vishnyakova D, Pasche E, Teodoro D, Ruch P, Lovis C. Pathogens and Genome Normalization for Literature-based Knowledge Discovery. 23 rd International Conference of the European Federation for Medical Informatics [Internet]. 2011 . Available from: http://person.hst.aau.dk/ska/mie2011/CD/MIE_2011_Content/Posters/031_or_submission_228_2_am_sm_ok.pdfPDF icon MIE2001_DVISHNYAKOVA_fv.pdf (114.87 KB)
Pasche E, Teodoro D, Gobeill J, Vishnyakova D, Ruch P, Lovis C. KART, a knowledge authoring and refinement tool for clinical guidelines development. BMC Proceedings [Internet]. 2011 ;5:O49. Available from: http://www.biomedcentral.com/1753-6561/5/S6/O49PDF icon KART_2011.pdf (170.85 KB)

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