Patrick Ruch

Anne-Lise Veuthey, Alan Bridge, Julien Gobeill, Patrick Ruch, Johanna R. McEntyre, Lydie Bougueleret, Ioannis Xenarios: Application of text-mining for updating protein post-translational modification annotation in UniProtKB. BMC Bioinformatics 14: 104 (2013)

Patrick Ruch, Thomas Brunschwiler, Stephan Paredes, Gerhard Ingmar Meijer, Bruno Michel: Roadmap towards ultimately-efficient zeta-scale datacenters. DATE 2013: 1339-1344

Patrick Ruch, Thomas Brunschwiler, Werner Escher, Stephan Paredes, Bruno Michel: Bionic Packaging: A Promising Paradigm for Future Computing. ERCIM News 2012(89) (2012)

Julien Gobeill, Patrick Ruch: BiTeM Site Report for the Claims to Passage Task in CLEF-IP 2012. CLEF (Online Working Notes/Labs/Workshop) 2012

Zhiyong Lu, Hung-Yu Kao, Chih-Hsuan Wei, Minlie Huang, Jingchen Liu, Cheng-Ju Kuo, Chun-Nan Hsu, Richard Tzong-Han Tsai, Hong-Jie Dai, Naoaki Okazaki, Han-Cheol Cho, Martin Gerner, Illés Solt, Shashank Agarwal, Feifan Liu, Dina Vishnyakova, Patrick Ruch, Martin Romacker, Fabio Rinaldi, Sanmitra Bhattacharya, Padmini Srinivasan, Hongfang Liu, Manabu Torii, Sérgio Matos, David Campos, Karin Verspoor, Kevin M. Livingston, W. John Wilbur: The gene normalization task in BioCreative III. BMC Bioinformatics 12(S-8): S2 (2011)

Patrick Ruch, Thomas Brunschwiler, Werner Escher, Stephan Paredes, Bruno Michel: Toward five-dimensional scaling: How density improves efficiency in future computers. IBM Journal of Research and Development 55(5): 15 (2011)

Julien Gobeill, Arnaud Gaudinat, Patrick Ruch, Emilie Pasche, Douglas Teodoro, Dina Vishnyakova: BiTeM Group Report for TREC Chemical IR Track 2011. TREC 2011

Julien Gobeill, Arnaud Gaudinat, Patrick Ruch, Emilie Pasche, Douglas Teodoro, Dina Vishnyakova: BiTeM Group Report for TREC Medical Records Track 2011. TREC 2011

Patrick Ruch: Literature-based Discovery. JASIST 61(7): 1506-1508 (2010)

Douglas Teodoro, Julien Gobeill, Emilie Pasche, Dina Vishnyakova, Patrick Ruch, Christian Lovis: Automatic Prior Art Searching and Patent Encoding at CLEF-IP '10. CLEF (Notebook Papers/LABs/Workshops) 2010

Julien Gobeill, Arnaud Gaudinat, Patrick Ruch, Emilie Pasche, Douglas Teodoro, Dina Vishnyakova: BiTeM site Report for TREC Chemistry 2010: Impact of Citations Feeback for Patent Prior Art Search and Chemical Compounds Expansion for Ad Hoc Retrieval. TREC 2010

Susanne M. Humphrey, Aurélie Névéol, Allen C. Browne, Julien Gobeill, Patrick Ruch, Stéfan Jacques Darmoni: Comparing a rule-based versus statistical system for automatic categorization of MEDLINE documents according to biomedical specialty. JASIST 60(12): 2530-2539 (2009)

Julien Gobeill, Emilie Pasche, Douglas Teodoro, Patrick Ruch: Simple Pre and Post Processing Strategies for Patent Searching in CLEF Intellectual Property Track 2009. CLEF (1) 2009: 444-451

Douglas Teodoro, Rémy Choquet, Emilie Pasche, Julien Gobeill, Christel Daniel, Patrick Ruch, Christian Lovis: Biomedical Data Management: A Proposal Framework. MIE 2009: 175-179

Emilie Pasche, Douglas Teodoro, Julien Gobeill, Patrick Ruch, Christian Lovis: Automatic Medical Knowledge Acquisition Using Question-Answering. MIE 2009: 569-573

Julien Gobeill, Douglas Teodoro, Emilie Pasche, Patrick Ruch: Report on the TREC 2009 Experiments: Chemical IR Track. TREC 2009

Julien Gobeill, Imad Tbahriti, Frédéric Ehrler, Anaïs Mottaz, Anne-Lise Veuthey, Patrick Ruch: Gene Ontology density estimation and discourse analysis for automatic GeneRiF extraction. BMC Bioinformatics 9(S-3) (2008)

Anaïs Mottaz, Yum Lina Yip, Patrick Ruch, Anne-Lise Veuthey: Mapping proteins to disease terminologies: from UniProt to MeSH. BMC Bioinformatics 9(S-5) (2008)

Julien Gobeill, Patrick Ruch, Xin Zhou: Query and Document Expansion with Medical Subject Headings Terms at Medical Imageclef 2008. CLEF 2008: 736-743

Patrick Ruch, Célia Boyer, Christine Chichester, Imad Tbahriti, Antoine Geissbühler, Paul Fabry, Julien Gobeill, Violaine Pillet, Dietrich Rebholz-Schuhmann, Christian Lovis, Anne-Lise Veuthey: Using argumentation to extract key sentences from biomedical abstracts. I. J. Medical Informatics 76(2-3): 195-200 (2007)

Anaïs Mottaz, Yum Lina Yip, Patrick Ruch, Anne-Lise Veuthey: Mapping protein information to disease terminologies. J. Integrative Bioinformatics 4(3) (2007)

Frédéric Ehrler, Patrick Ruch: Unsupervised Documents Categorization Using New Threshold-Sensitive Weighting Technique. AIME 2007: 247-251

Xin Zhou, Julien Gobeill, Patrick Ruch, Henning Müller: University and Hospitals of Geneva Participating at ImageCLEF 2007. CLEF 2007: 649-656

Imad Tbahriti, Anne-Lise Veuthey, Patrick Ruch, Julien Gobeill: Recherche d'information et analyse bibliographique appliquées à la mise à jour automatique de Swiss-Prot. CORIA 2007: 319-334

Jimison Iavindrasana, Adrien Depeursinge, Patrick Ruch, Stéphane Spahni, Antoine Geissbühler, Henning Müller: Design of a Decentralized Reusable Research Database Architecture to Support Data Acquisition in Large Research Projects. MedInfo 2007: 325-329

Frédéric Ehrler, Patrick Ruch, Antoine Geissbühler, Christian Lovis: Challenges and Methodology for Indexing the Computerized Patient Record. MedInfo 2007: 417-421

Patrick Ruch, Antoine Geissbühler, Julien Gobeill, Frédéric Lisacek, Imad Tbahriti, Anne-Lise Veuthey, Alan R. Aronson: Using Discourse Analysis to Improve Text Categorization in MEDLINE. MedInfo 2007: 710-715

Robert H. Baud, Werner Ceusters, Patrick Ruch, Anne-Marie Rassinoux, Christian Lovis, Antoine Geissbühler: Reconciliation of Ontology and Terminology to Cope with Linguistics. MedInfo 2007: 796-801

Dina Demner-Fushman, Susanne M. Humphrey, Nicholas C. Ide, Russell F. Loane, James G. Mork, Patrick Ruch, Miguel E. Ruiz, Lawrence H. Smith, W. John Wilbur, Alan R. Aronson: Combining Resources to Find Answers to Biomedical Questions. TREC 2007

Julien Gobeill, Imad Tbahriti, Frédéric Ehrler, Patrick Ruch: Vocabulary-Driven Passage Retrieval for Question-Answering in Genomics. TREC 2007

Patrick Ruch: Automatic assignment of biomedical categories: toward a generic approach. Bioinformatics 22(6): 658-664 (2006)

Arnaud Gaudinat, Patrick Ruch, Michel Joubert, Philippe Uziel, Anne Strauss, Michèle Thonnet, Robert H. Baud, Stéphane Spahni, Patrick Weber, Juan Bonal, Célia Boyer, Marius Fieschi, Antoine Geissbühler: Health search engine with e-document analysis for reliable search results. I. J. Medical Informatics 75(1): 73-85 (2006)

Nigel Collier, Adeline Nazarenko, Robert H. Baud, Patrick Ruch: Recent advances in natural language processing for biomedical applications. I. J. Medical Informatics 75(6): 413-417 (2006)

Imad Tbahriti, Christine Chichester, Frédérique Lisacek, Patrick Ruch: Using argumentation to retrieve articles with similar citations: An inquiry into improving related articles search in the MEDLINE digital library. I. J. Medical Informatics 75(6): 488-495 (2006)

Paul Fabry, Robert H. Baud, Patrick Ruch, Christelle Despont-Gros, Christian Lovis: Methodology to ease the construction of a terminology of problems. I. J. Medical Informatics 75(8): 624-632 (2006)

William R. Hersh, Henning Müller, Jeffery R. Jensen, Jianji Yang, Paul N. Gorman, Patrick Ruch: Model Formulation: Advancing Biomedical Image Retrieval: Development and Analysis of a Test Collection. JAMIA 13(5): 488-496 (2006)

Patrick Ruch, Imad Tbahriti, Julien Gobeill, Alan R. Aronson: Argumentative Feedback: A Linguistically-Motivated Term Expansion for Information Retrieval. ACL 2006

Julien Gobeill, Henning Müller, Patrick Ruch: Translation by Text Categorisation: Medical Image Retrieval in ImageCLEFmed 2006. CLEF 2006: 706-710

Samir Abdou, Jacques Savoy, Patrick Ruch: Dépister efficacement de l'information dans une banque documentaire : L'exemple de MEDLINE. INFORSID 2006: 129-143

Dina Demner-Fushman, Susanne M. Humphrey, Nicholas C. Ide, Russell F. Loane, Patrick Ruch, Miguel E. Ruiz, Lawrence H. Smith, Lorraine K. Tanabe, W. John Wilbur, Alan R. Aronson: Finding Relevant Passages in Scientific Articles: Fusion of Automatic Approaches vs. an Interactive Team Effort. TREC 2006

Patrick Ruch, Frédéric Ehrler, Julien Gobeill, Imad Tbahriti, A. J. Yepes: Report on the TREC 2006 Experiment: Genomics Track. TREC 2006

Frédéric Ehrler, Antoine Geissbühler, Antonio Jimeno-Yepes, Patrick Ruch: Data-poor categorization and passage retrieval for Gene Ontology Annotation in Swiss-Prot. BMC Bioinformatics 6(S-1) (2005)

Pierre Zweigenbaum, Robert H. Baud, Anita Burgun, Fiammetta Namer, Éric Jarrousse, Natalia Grabar, Patrick Ruch, Franck Le Duff, Jean-François Forget, Magaly Douyère, Stéfan Jacques Darmoni: UMLF: a unified medical lexicon for French. I. J. Medical Informatics 74(2-4): 119-124 (2005)

Patrick Ruch, Robert H. Baud, Johan Marty, Antoine Geissbühler, Imad Tbahriti, Anne-Lise Veuthey: Latent Argumentative Pruning for Compact MEDLINE Indexing. AIME 2005: 246-250

Henning Müller, Antoine Geissbühler, Johan Marty, Christian Lovis, Patrick Ruch: The Use of MedGIFT and EasyIR for ImageCLEF 2005. CLEF 2005: 724-732

Patrick Ruch, Laura Perret, Jacques Savoy: Features Combination for Extracting Gene Functions from MEDLINE. ECIR 2005: 112-126

Gilles Cohen, Patrick Ruch, Melanie Hilario: Model Selection for Support Vector Classifiers via Direct Simplex Search. FLAIRS Conference 2005: 431-435

Samir Abdou, Jacques Savoy, Patrick Ruch: Evaluation of Stemming, Query Expansion and Manual Indexing Approaches for the Genomic Task. TREC 2005

Alan R. Aronson, Dina Demner-Fushman, Susanne M. Humphrey, Jimmy J. Lin, Patrick Ruch, Miguel E. Ruiz, Lawrence H. Smith, Lorraine K. Tanabe, W. John Wilbur, Hongfang Liu: Fusion of Knowledge-Intensive and Statistical Approaches for Retrieving and Annotating Textual Genomics Documents. TREC 2005

Patrick Ruch, Frédéric Ehrler, Samir Abdou, Jacques Savoy: Report on the TREC 2005 Experiment: Genomics Track. TREC 2005

Henning Müller, Antoine Geissbühler, Patrick Ruch: ImageCLEF 2004: Combining Image and Multi-lingual Search for Medical Image Retrieval. CLEF 2004: 718-727

Patrick Ruch: Query Translation by Text Categorization. COLING 2004

Vincenzo Pallotta, Hatem Ghorbel, Patrick Ruch, Giovanni Coray: An Argumentative Annotation Schema for Meeting Discussions. LREC 2004

Patrick Ruch, Christine Chichester, Gilles Cohen, Frédéric Ehrler, Paul Fabry, Johan Marty, Henning Müller, Antoine Geissbühler: Report on the TREC 2004 Experiment: Genomics Track. TREC 2004

Vincenzo Pallotta, Hatem Ghorbel, Patrick Ruch, Giovanni Coray: An argumentative annotation schema for meeting discussions. CoRR cs.CL/0410061 (2004)

Patrick Ruch, Robert H. Baud, Antoine Geissbühler: Using lexical disambiguation and named-entity recognition to improve spelling correction in the electronic patient record. Artificial Intelligence in Medicine 29(1-2): 169-184 (2003)

Patrick Ruch, Robert H. Baud, Antoine Geissbühler: Learning-Free Text Categorization. AIME 2003: 199-208

Patrick Ruch, Gilles Cohen, Frédéric Ehrler, Henning Müller, Giovanni Coray, Hatem Ghorbel, Vincenzo Pallotta, Christine Chichester: Report on the TREC 2003 Experiment: Genomic Track. TREC 2003: 756-761

Robert H. Baud, Patrick Ruch: The future of natural language processing for biomedical applications. I. J. Medical Informatics 67(1-3): 1-5 (2002)

Patrick Ruch, Robert H. Baud, Antoine Geissbühler: Evaluating and reducing the effect of data corruption when applying bag of words approaches to medical records. I. J. Medical Informatics 67(1-3): 75-83 (2002)

Patrick Ruch: Using Contextual Spelling Correction to Improve Retrieval Effectiveness in Degraded Text Collections. COLING 2002

Patrick Ruch: Information retrieval and spelling correction: an inquiry into lexical disambiguation. SAC 2002: 699-703

Patrick Ruch, Robert H. Baud, Antoine Geissbühler, Christian Lovis, Anne-Marie Rassinoux, Alain Rivière: Using Part-of-Speech and Word-Sense Disambiguation for Boosting String-Edit Distance Spelling Correction. AIME 2001: 249-257