Patrick Ruch

Summary

Affiliation: University Hospital
Country: Switzerland

Publications

  1. pmc From episodes of care to diagnosis codes: automatic text categorization for medico-economic encoding
    Patrick Ruch
    Medical Informatics Service, University and University Hospitals of Geneva, Geneva, Switzerland
    AMIA Annu Symp Proc . 2008
  2. ncbi request reprint A bio-medical informatics perspective on human factors. Findings from the Yearbook 2008 Section on Human Factors
    P Ruch
    University and University Hospitals of Geneva, Department of Medical Informatics, Geneva, Switzerland
    Yearb Med Inform . 2008
  3. pmc Mapping proteins to disease terminologies: from UniProt to MeSH
    Anais Mottaz
    Swiss Prot group, Swiss Institute of Bioinformatics, 1211 Geneve 4, Switzerland
    BMC Bioinformatics 9:S3. 2008
  4. ncbi request reprint Using discourse analysis to improve text categorization in MEDLINE
    Patrick Ruch
    Medical Informatics Service, University and Hospital of Geneva, Geneva, Switzerland
    Stud Health Technol Inform 129:710-5. 2007
  5. ncbi request reprint Using argumentation to extract key sentences from biomedical abstracts
    Patrick Ruch
    SIM, University Hospitals of Geneva, Geneva, CH, Switzerland
    Int J Med Inform 76:195-200. 2007
  6. ncbi request reprint Automatic assignment of biomedical categories: toward a generic approach
    Patrick Ruch
    University Hospitals of Geneva, Medical Informatics Service CH 1201, Geneva
    Bioinformatics 22:658-64. 2006
  7. ncbi request reprint Using argumentation to retrieve articles with similar citations: an inquiry into improving related articles search in the MEDLINE digital library
    Imad Tbahriti
    SIM, University and Hospitals of Geneva, 24 Micheli du Crest, 1211 Geneva, Switzerland
    Int J Med Inform 75:488-95. 2006
  8. pmc Gene Ontology density estimation and discourse analysis for automatic GeneRiF extraction
    Julien Gobeill
    University and Hospitals of Geneva, Geneva, Switzerland
    BMC Bioinformatics 9:S9. 2008
  9. ncbi request reprint Interoperability driven integration of biomedical data sources
    Douglas Teodoro
    SIMED, University Hospitals of Geneva, Geneva, Switzerland
    Stud Health Technol Inform 169:185-9. 2011
  10. ncbi request reprint A user-friendly tool for medical-related patent retrieval
    Emilie Pasche
    SIMED, University Hospitals of Geneva and University of Geneva, Geneva, Switzerland
    Stud Health Technol Inform 174:121-5. 2012

Detail Information

Publications35

  1. pmc From episodes of care to diagnosis codes: automatic text categorization for medico-economic encoding
    Patrick Ruch
    Medical Informatics Service, University and University Hospitals of Geneva, Geneva, Switzerland
    AMIA Annu Symp Proc . 2008
    ..The performance of the data-poor classifier is weak, whereas the use of tempo-rally-typed contents such as anamnesis and prescription free text sections results in a statistically significant improvement...
  2. ncbi request reprint A bio-medical informatics perspective on human factors. Findings from the Yearbook 2008 Section on Human Factors
    P Ruch
    University and University Hospitals of Geneva, Department of Medical Informatics, Geneva, Switzerland
    Yearb Med Inform . 2008
    ..To summarize current excellent research in the field of human factors...
  3. pmc Mapping proteins to disease terminologies: from UniProt to MeSH
    Anais Mottaz
    Swiss Prot group, Swiss Institute of Bioinformatics, 1211 Geneve 4, Switzerland
    BMC Bioinformatics 9:S3. 2008
    ..In order to make these data easily accessible to clinical researchers, we have developed a procedure to link diseases described in the UniProtKB/Swiss-Prot entries to the MeSH disease terminology...
  4. ncbi request reprint Using discourse analysis to improve text categorization in MEDLINE
    Patrick Ruch
    Medical Informatics Service, University and Hospital of Geneva, Geneva, Switzerland
    Stud Health Technol Inform 129:710-5. 2007
    ..linguistically-motivated methods (syntactic parsing, semantic tagging, or information retrieval...
  5. ncbi request reprint Using argumentation to extract key sentences from biomedical abstracts
    Patrick Ruch
    SIM, University Hospitals of Geneva, Geneva, CH, Switzerland
    Int J Med Inform 76:195-200. 2007
    ..We design and assess the performance of an automatic key sentence selector, which classifies sentences into four argumentative moves: PURPOSE, METHODS, RESULTS and..
  6. ncbi request reprint Automatic assignment of biomedical categories: toward a generic approach
    Patrick Ruch
    University Hospitals of Geneva, Medical Informatics Service CH 1201, Geneva
    Bioinformatics 22:658-64. 2006
    ..Unlike usual automatic text categorization systems, which rely on data-intensive models extracted from large sets of training data, our categorizer is largely data-independent...
  7. ncbi request reprint Using argumentation to retrieve articles with similar citations: an inquiry into improving related articles search in the MEDLINE digital library
    Imad Tbahriti
    SIM, University and Hospitals of Geneva, 24 Micheli du Crest, 1211 Geneva, Switzerland
    Int J Med Inform 75:488-95. 2006
    ..A linear weighting combination of the moves is proposed, which significantly improves retrieval of related articles...
  8. pmc Gene Ontology density estimation and discourse analysis for automatic GeneRiF extraction
    Julien Gobeill
    University and Hospitals of Geneva, Geneva, Switzerland
    BMC Bioinformatics 9:S9. 2008
    ..A combination of the two approaches is proposed, which also aims at reducing the size of the selected segment by filtering out non-content bearing rhetorical phrases...
  9. ncbi request reprint Interoperability driven integration of biomedical data sources
    Douglas Teodoro
    SIMED, University Hospitals of Geneva, Geneva, Switzerland
    Stud Health Technol Inform 169:185-9. 2011
    ..The architecture managed to provide interoperability within the limited heterogeneous grid of hospitals. Preliminary scalability result tests are provided...
  10. ncbi request reprint A user-friendly tool for medical-related patent retrieval
    Emilie Pasche
    SIMED, University Hospitals of Geneva and University of Geneva, Geneva, Switzerland
    Stud Health Technol Inform 174:121-5. 2012
    ..We can also assume that it can be customized to be applied in corporate search environments to process domain and company-specific vocabularies, including non-English literature and patents reports...
  11. ncbi request reprint Coping with the variability of medical terms
    Robert H Baud
    Medical Informatics Division, University Hospitals of Geneva, Geneva, Switzerland
    Stud Health Technol Inform 107:322-6. 2004
    ..To cope with medical terms, which present a high variability of expression through a single natural language, in the sense that any term may be reformulated in hundred of different ways...
  12. ncbi request reprint Extracting key sentences with latent argumentative structuring
    Patrick Ruch
    University Hospitals of Geneva, 24 Micheli du Crest, CH 1211 Geneva, Switzerland
    Stud Health Technol Inform 116:835-40. 2005
    ..We design and assess the performance of an automatic key sentence selector, which classifies sentences into 4 argumentative moves: PURPOSE, METHODS, RESULTS and CONCLUSION...
  13. ncbi request reprint Using multimodal mining to drive clinical guidelines development
    Emilie Pasche
    BiTeM Group, Geneva, Switzerland
    Stud Health Technol Inform 169:477-81. 2011
    ..These results suggest that combining literature-based discovery with structured data mining can significantly improve effectiveness of decision-support systems for authors of clinical practice guidelines...
  14. pmc Assisted knowledge discovery for the maintenance of clinical guidelines
    Emilie Pasche
    Division of Medical Information Sciences, University Hospitals of Geneva and University of Geneva, Geneva, Switzerland
    PLoS ONE 8:e62874. 2013
    ..Establishing clinical practice guidelines is crucial to this effort, but their development is a complex task and their quality is directly related to the methodology and source of knowledge used...
  15. ncbi request reprint Classification and prioritization of biomedical literature for the comparative toxicogenomics database
    Dina Vishnyakova
    University Hospitals of Geneva, Geneva, Switzerland
    Stud Health Technol Inform 180:210-4. 2012
    ..Disease normalization is achieved with 95% precision and 93% of recall. The evaluation of the classification was done on the corpus provided by BioCreative organizers in 2012. The approach showed promising performance on the test data...
  16. pmc Building a transnational biosurveillance network using semantic web technologies: requirements, design, and preliminary evaluation
    Douglas Teodoro
    University Hospitals of Geneva, Switzerland
    J Med Internet Res 14:e73. 2012
    ..Several initiatives to track drug resistance evolution have been developed. However, no effective real-time and source-independent antimicrobial resistance monitoring system is available publicly...
  17. ncbi request reprint Reconciliation of ontology and terminology to cope with linguistics
    Robert H Baud
    University Hospitals of Geneva, Service d Informatique Médicale, Switzerland
    Stud Health Technol Inform 129:796-801. 2007
    ..To discuss the relationships between ontologies, terminologies and language in the context of Natural Language Processing (NLP) applications in order to show the negative consequences of confusing them...
  18. pmc Using binary classification to prioritize and curate articles for the Comparative Toxicogenomics Database
    Dina Vishnyakova
    Bibliomics and Text Mining Group, Geneva, Switzerland
    Database (Oxford) 2012:bas050. 2012
    ..The specific integration performed for the BioCreative competition is available via a web user interface at http://pingu.unige.ch:8080/Toxicat...
  19. ncbi request reprint Design of a decentralized reusable research database architecture to support data acquisition in large research projects
    Jimison Iavindrasana
    Geneva University Hospitals, Geneva, Switzerland
    Stud Health Technol Inform 129:325-9. 2007
    ..The proposed design will be implemented inside six clinical centers participating in the @neurIST project as part of a larger system on data integration and reuse for aneurism treatment...
  20. ncbi request reprint Automatic medical knowledge acquisition using question-answering
    Emilie Pasche
    Medical Informatics Service, University Hospitals of Geneva and University of Geneva, 1211 Geneva 14, Switzerland
    Stud Health Technol Inform 150:569-73. 2009
    ..These results suggest that a significant fraction of the medical knowledge can be obtained by such an automatic text mining approach...
  21. ncbi request reprint Biomedical data management: a proposal framework
    Douglas Teodoro
    SIM, University of Geneva and University Hospitals of Geneva, 1211 Geneva, Switzerland
    Stud Health Technol Inform 150:175-9. 2009
    ..This paper presents a pilot system that will be used in the European FP7 DebugIT project to integrate biomedical data from several healthcare centres across Europe...
  22. pmc Automatic medical encoding with SNOMED categories
    Patrick Ruch
    Medical Informatics Service, University and University Hospitals of Geneva, Geneva, Switzerland
    BMC Med Inform Decis Mak 8:S6. 2008
    ..In this paper, we describe the design and preliminary evaluation of a new type of tools to speed up the encoding of episodes of care using the SNOMED CT terminology...
  23. pmc Data-poor categorization and passage retrieval for gene ontology annotation in Swiss-Prot
    Frédéric Ehrler
    Artificial Intelligence Laboratory, University of Geneva, Geneva, Switzerland
    BMC Bioinformatics 6:S23. 2005
    ....
  24. ncbi request reprint Use of controlled vocabularies to improve biomedical information retrieval tasks
    Emilie Pasche
    Division of Medical Information Sciences, University Hospitals of Geneva and University of Geneva, Geneva, Switzerland
    Stud Health Technol Inform 192:1068. 2013
    ....
  25. ncbi request reprint Challenges and methodology for indexing the computerized patient record
    Frédéric Ehrler
    Artificial Intelligence Laboratory, University of Geneva, Geneva, Switzerland
    Stud Health Technol Inform 129:417-21. 2007
    ..As the number of modifications and creations of patient records are significant in a day, using a specialized and efficient indexation tool is required...
  26. ncbi request reprint DebugIT: building a European distributed clinical data mining network to foster the fight against microbial diseases
    Christian Lovis
    Service of Medical Informatics, University Hospitals of Geneva, Switzerland
    Stud Health Technol Inform 148:50-9. 2009
    ..The concepts and architecture underlying this project are discussed...
  27. ncbi request reprint Health search engine with e-document analysis for reliable search results
    Arnaud Gaudinat
    Health On the Net Foundation, Geneva, Switzerland
    Int J Med Inform 75:73-85. 2006
    ..After a review of the existing practical solution available to the citizen to retrieve eHealth document, the paper describes an original specialized search engine WRAPIN...
  28. ncbi request reprint Using lexical disambiguation and named-entity recognition to improve spelling correction in the electronic patient record
    Patrick Ruch
    Medical Informatics Division, University Hospital of Geneva, 1205 Geneva, Switzerland
    Artif Intell Med 29:169-84. 2003
    ..It is concluded that NLP is mature enough to help information processing in EPR...
  29. pmc Closing the loop: from paper to protein annotation using supervised Gene Ontology classification
    Julien Gobeill
    BiTeM Group, University of Applied Sciences HEG, Library and Information Sciences, Rte de Drize 7, 1227 Geneva, Switzerland, Division of Medical Information Sciences, University and Hospitals of Geneva, Geneva, Switzerland and SIBtex group, SIB Swiss Institute of Bioinformatics, Rue Michel Servet 1, 1206 Geneva, Switzerland BiTeM group, University of Applied Sciences HEG, Library and Information Sciences, Rte de Drize 7, 1227 Geneva, Switzerland, Division of Medical Information Sciences, University and Hospitals of Geneva, Geneva, Switzerland and SIBtex group, SIB Swiss Institute of Bioinformatics, Rue Michel Servet 1, 1206 Geneva, Switzerland
    Database (Oxford) 2014:. 2014
    ..Observed performances are sufficient for being used in a real semiautomatic curation workflow. GOCat is available at http://eagl.unige.ch/GOCat/...
  30. ncbi request reprint The future of natural language processing for biomedical applications
    Robert Baud
    Medical Informatics Division, University Hospitals of Geneva, Geneva, Switzerland
    Int J Med Inform 67:1-5. 2002
  31. ncbi request reprint Recent advances in natural language processing for biomedical applications
    Nigel Collier
    Int J Med Inform 75:413-7. 2006
    ..In general, we argue that clinical corpora, including electronic patient records, must be made available to fill the gap between bioinformatics and medical informatics...
  32. ncbi request reprint UMLF: a unified medical lexicon for French
    Pierre Zweigenbaum
    STIM DSI Assistance Publique Hôpitaux de Paris, 91, Boulevard de l Hopital, 75634 Paris Cedex 13, France
    Int J Med Inform 74:119-24. 2005
    ..This paper exposes the issues raised by such an objective, describes the methods on which the project relies and illustrates them with experimental results...
  33. ncbi request reprint Towards a unified medical lexicon for French
    Pierre Zweigenbaum
    STIM DSI, Assitance Publique Hôpitaux de Paris, France
    Stud Health Technol Inform 95:415-20. 2003
    ..This paper exposes the issues raised by such an objective, describes the methods on which the project relies and illustrates them with experimental results...
  34. pmc Advancing biomedical image retrieval: development and analysis of a test collection
    William R Hersh
    Department of Medical Informatics and Clinical Epidemiology, Oregon Health and Science University, BICC, Portland, OR 97239, USA
    J Am Med Inform Assoc 13:488-96. 2006
    ..Develop and analyze results from an image retrieval test collection...
  35. ncbi request reprint Methodology to ease the construction of a terminology of problems
    Paul Fabry
    CRED, Centre Hospitalier Universitaire de Sherbrooke, Que, Canada
    Int J Med Inform 75:624-32. 2006
    ..We developed a methodology to extract a collection of standardized problem-related terms from medical documents entered in free text by physicians...