Patrick Ruch's CV
University of Applied Sciences Geneva (HES-SO)
7 route de Drize
Tél: 022 388 17 81
Date of birth : 15.05.1970;
Languages: Français, anglais, allemand
Prof. Dr. Patrick Ruch is Professor and head of the Bibliomics and Text Mining group of the Department of Information sciences at the University of Applied Sciences Geneva. He also serves as chair of the European Federation of Medical Informatics’ Working Group on Text Mining. Patrick Ruch graduated in both computer science (INSTN, Commissariat à l'Energie Atomique, Saclay, France) and philosophy (Sorbonne University, Paris). He received his PhD in computer science from the University of Geneva in 2002. He then occupied various corporate and public research positions in Europe (IBM Zürich Research Lab.; EPFL Lausanne) and in the US (National Institutes of Health, Bethesda, MD). From 1998 to 2008, he worked at University Hospitals of Geneva in the Radiology and Medical Informatics department. In 2008, he became a Professor of Information and Library Sciences at the Geneva School of Business Administration. He is author of more than fifty original scientific publications in peer-reviewed scientific journals in information sciences, bioinformatics, computer science and health sciences. His current research focuses on developing methods to exploit highly structured semantically-rich data types (Wikipedia/DBPedia, molecular biology databases, ontologies, SPARQL endpoints...) and unstructured content (texts, sequences, patents, clinical narratives...). His team develops expertise and infrastructure services to search and mine various unstructured and semi-structured data repositories for both public libraries (MEDLINE, patents libraries, the WWW) and private companies (Electronic Medical Records, corporate collections).
2009-present : Professeur HES, Haute école de Gestion de Genève, Filière Information documentaire
2008-2009: Research contractor, IBM Research Labs, Rueschlikon
2005-2006: Research scientist, National Center for Biotechnological Information, National Institute of Health, National Library of Medicine, Bethesda, MD.
1998-2008: Lecturer, Computer sciences/Radiology department, University of Geneva
Education and Training
2002 : Doctorat ès Sciences – Computer Sciences, University of Geneva
1997 : Master of Sciences – INSTN/CNAM/Univ. Marne-la-Vallée, Fance.
1996 : Master of Philosophy - Sorbonne, Paris.
Research (selection of on-going research projects)
AXES: medical informatics, bioinformatics, information retrieval, text mining, ontology engineering, semantic web IT.
2009-2014. Khresmoi (Integrated project): http://khresmoi.eu/. Axes: information retrieval in life and health sciences. Funding agency : EU FP7 – Digital Library
2009-2013. epSOS : http://www.epsos.eu. Axes: Semantic Interoperability, Ontologies and Terminological Services for Clinical Data. Funding agency : EU FP7 – Policy Support Action
2008-2012. DebugIT (Integrated project): http://debugit.eu/. Axes: pharmacologic decision-support systems powered with multimodal semantic mining. Funding agency : EU FP7 – ICT4Health
2011-2012. RESIPI: Real-time Engine for Selecting Information for Patentable Innovation. http://www.aramis.admin.ch/Default.aspx?page=Grunddaten&projectid=28977. Axes: Patent mining, trend and novelty detection for intellectual property. Funding agency : KTI – Enabling sciences
Selection of scientific publications (last five years: 2006-2011)
Full list of papers in DBLP (only peer-reviewed contents): [total: 53 publications]
Full list of papers in MEDLINE (only peer-reviewed contents): [Total: 52 publications]
Lu Z, Kao HY, Wei CH, Huang M, Liu J, Kuo CJ, Hsu CN, Tsai RT, Dai HJ, Okazaki N, Cho HC, Gerner M, Solt I, Agarwal S, Liu F, Vishnyakova D, Ruch P, Romacker M, Rinaldi F, Bhattacharya S, Srinivasan P, Liu H, Torii M, Matos S, Campos D, Verspoor K, Livingston KM, Wilbur WJ: The gene normalization task in BioCreative III. BMC Bioinformatics. 2011 Oct 3;12 Suppl 8:S2.
Gobeill J, Gaudinat A, Pasche P, Teodoro D, Vishnyakova D, Ruch P: 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.
Pasche E, Teodoro D, Gobeill J, Ruch P, Lovis C: Automatic medical knowledge acquisition using question-answering. Stud Health Technol Inform. 2009;150:569-73.
Humphrey SM, Névéol A, Browne AC, Gobeill J, Ruch P, Darmoni SJ: Comparing a rule-based versus statistical system for automatic categorization of MEDLINE documents according to biomedical specialty. JASIST 60(12): 2530-2539 (2009)
Ruch P, Gobeill J, Lovis C, Geissbühler A: Automatic medical encoding with SNOMED categories. BMC Medical Informatics and Decision Making 2008, 8(Suppl 1):S6.
Gobeill J, Tbahriti I, Ehrler F, Mottaz A, Veuthey AL, Ruch P: Gene Ontology density estimation and discourse analysis for automatic GeneRiF extraction. BMC Bioinformatics 9(S-3): (2008)
Ruch P, Boyer C, Chichester C, Tbahriti I, Geissbühler A, Fabry P, Gobeill J, Pillet V, Rebholz-Schuhmann D, Lovis C, Veuthey AL: Using argumentation to extract key sentences from biomedical abstracts. Int J Med Inform. 2007 Feb-Mar;76(2-3):195-200. Epub 2006 Jul 11.
Ehrler F, Ruch P: Unsupervised Documents Categorization Using New Threshold-Sensitive Weighting Technique. AIME 2007: 247-251
Hersh WR, Müller H, Jensen JR, Yang J, Gorman PN, Ruch P: Advancing biomedical image retrieval: development and analysis of a test collection. J Am Med Inform Assoc. 2006 Sep-Oct;13(5):488-96. Epub 2006 Jun 23.
Ruch P: Automatic assignment of biomedical categories: toward a generic approach. Bioinformatics 22(6): 658-664 (2006).