2020

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SIB Text Mining at TREC Precision Medicine 2020
Emilie Pasche | Déborah Caucheteur | Luc Mottin | Anaïs Mottaz | Julien Gobeill | Patrick Ruch
Proceedings of the Twenty-Ninth Text REtrieval Conference, TREC 2020, Virtual Event [Gaithersburg, Maryland, USA], November 16-20, 2020

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SIB Text Mining at TREC 2020 Deep Learning Track
Julien Knafou | Matthew Jeffryes | Sohrab Ferdowsi | Patrick Ruch
Proceedings of the Twenty-Ninth Text REtrieval Conference, TREC 2020, Virtual Event [Gaithersburg, Maryland, USA], November 16-20, 2020

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Named Entity Recognition in Chemical Patents using Ensemble of Contextual Language Models
Jenny Copara | Nona Naderi | Julien Knafou | Patrick Ruch | Douglas Teodoro
Working Notes of CLEF 2020 - Conference and Labs of the Evaluation Forum, Thessaloniki, Greece, September 22-25, 2020

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An Extended Overview of the CLEF 2020 ChEMU Lab: Information Extraction of Chemical Reactions from Patents
Jiayuan He | Dat Quoc Nguyen | Saber A. Akhondi | Christian Druckenbrodt | Camilo Thorne | Ralph Hoessel | Zubair Afzal | Zenan Zhai | Biaoyan Fang | Hiyori Yoshikawa | Ameer Albahem | Jingqi Wang | Yuankai Ren | Zhi Zhang | Yaoyun Zhang | Mai Hoang Dao | Pedro Ruas | Andre Lamurias | Francisco M. Couto | Jenny Copara | Nona Naderi | Julien Knafou | Patrick Ruch | Douglas Teodoro | Daniel M. Lowe | John Mayfield | Abdullatif Köksal | Hilal Dönmez | Elif Özkirimli | Arzucan Özgür | Darshini Mahendran | Gabrielle Gurdin | Nastassja Lewinski | Christina Tang | Bridget T. McInnes | C. S. Malarkodi | Pattabhi Rk Rao | Sobha Lalitha Devi | Lawrence Cavedon | Trevor Cohn | Timothy Baldwin | Karin Verspoor
Working Notes of CLEF 2020 - Conference and Labs of the Evaluation Forum, Thessaloniki, Greece, September 22-25, 2020

2019

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SIB Text Mining at TREC 2019 Deep Learning Track: Working Note
Julien Knafou | Matt Jeffryes | Luc Mottin | Douglas Teodoro | Patrick Ruch
Proceedings of the Twenty-Eighth Text REtrieval Conference, TREC 2019, Gaithersburg, Maryland, USA, November 13-15, 2019

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Designing retrieval models to contrast precision-driven ad hoc search vs. recall-driven treatment extraction in Precision Medicine
Déborah Caucheteur | Emilie Pasche | Julien Gobeill | Anaïs Mottaz | Luc Mottin | Patrick Ruch
Proceedings of the Twenty-Eighth Text REtrieval Conference, TREC 2019, Gaithersburg, Maryland, USA, November 13-15, 2019

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A Data-Driven Approach for Measuring the Severity of the Signs of Depression using Reddit Posts
Paul Van Rijen | Douglas Teodoro | Nona Naderi | Luc Mottin | Julien Knafou | Matt Jeffryes | Patrick Ruch
Working Notes of CLEF 2019 - Conference and Labs of the Evaluation Forum, Lugano, Switzerland, September 9-12, 2019

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A Baseline Approach for Early Detection of Signs of Anorexia and Self-harm in Reddit Posts
Nona Naderi | Julien Gobeill | Douglas Teodoro | Emilie Pasche | Patrick Ruch
Working Notes of CLEF 2019 - Conference and Labs of the Evaluation Forum, Lugano, Switzerland, September 9-12, 2019

2018

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Instance-based Learning for ICD10 Categorization
Julien Gobeill | Patrick Ruch
Working Notes of CLEF 2018 - Conference and Labs of the Evaluation Forum, Avignon, France, September 10-14, 2018

2017

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Customizing a Variant Annotation-Support Tool: an Inquiry into Probability Ranking Principles for TREC Precision Medicine
Emilie Pasche | Julien Gobeill | Luc Mottin | Anaïs Mottaz | Douglas Teodoro | Paul Van Rijen | Patrick Ruch
Proceedings of The Twenty-Sixth Text REtrieval Conference, TREC 2017, Gaithersburg, Maryland, USA, November 15-17, 2017

2016

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BiTeM at CLEF eHealth Evaluation Lab 2016 Task 2: Multilingual Information Extraction
Luc Mottin | Julien Gobeill | Anaïs Mottaz | Emilie Pasche | Arnaud Gaudinat | Patrick Ruch
Working Notes of CLEF 2016 - Conference and Labs of the Evaluation forum, Évora, Portugal, 5-8 September, 2016

2015

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Exploiting incoming and outgoing citations for improving Information Retrieval in the TREC 2015 Clinical Decision Support Track
Julien Gobeill | Arnaud Gaudinat | Patrick Ruch
Proceedings of The Twenty-Fourth Text REtrieval Conference, TREC 2015, Gaithersburg, Maryland, USA, November 17-20, 2015

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Instance-Based Learning for Tweet Monitoring and Categorization
Julien Gobeill | Arnaud Gaudinat | Patrick Ruch
Experimental IR Meets Multilinguality, Multimodality, and Interaction - 6th International Conference of the CLEF Association, CLEF 2015, Toulouse, France, September 8-11, 2015, Proceedings

2014

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Full-texts representation with Medical Subject Headings, and co-citations network rerank- ing strategies for TREC 2014 Clinical Decision Support Track
Julien Gobeill | Arnaud Gaudinat | Emilie Pasche | Patrick Ruch
Proceedings of The Twenty-Third Text REtrieval Conference, TREC 2014, Gaithersburg, Maryland, USA, November 19-21, 2014

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Instance-based Learning for Tweet Categorization in CLEF RepLab 2014
Julien Gobeill | Arnaud Gaudinat | Patrick Ruch
Working Notes for CLEF 2014 Conference, Sheffield, UK, September 15-18, 2014

2013

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Using a Question-Answering Approach in Machine Reading Task of Biomedical Texts about the Alzheimer Disease
Dina Vishnyakova | Julien Gobeill | Patrick Ruch
Working Notes for CLEF 2013 Conference , Valencia, Spain, September 23-26, 2013

2012

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BiTeM Site Report for the Claims to Passage Task in CLEF-IP 2012
Julien Gobeill | Patrick Ruch
CLEF 2012 Evaluation Labs and Workshop, Online Working Notes, Rome, Italy, September 17-20, 2012

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Classification and Prioritization of Biomedical Literature for the Comparative Toxicogenomics Database
Dina Vishnyakova | Emilie Pasche | Julien Gobeill | Arnaud Gaudinat | Christian Lovis | Patrick Ruch
International Conference on Multimedia Retrieval, ICMR '12, Hong Kong, China, June 5-8, 2012

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An advanced search engine for patent analytics in medicinal chemistry
Emilie Pasche | Julien Gobeill | Douglas Teodoro | Arnaud Gaudinat | Dina Vishnyakova | Christian Lovis | Patrick Ruch
International Conference on Multimedia Retrieval, ICMR '12, Hong Kong, China, June 5-8, 2012

2011

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BiTeM Group Report for TREC Chemical IR Track 2011
Julien Gobeill | Arnaud Gaudinat | Patrick Ruch | Emilie Pasche | Douglas Teodoro | Dina Vishnyakova
Proceedings of The Twentieth Text REtrieval Conference, TREC 2011, Gaithersburg, Maryland, USA, November 15-18, 2011

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BiTeM Group Report for TREC Medical Records Track 2011
Julien Gobeill | Arnaud Gaudinat | Patrick Ruch | Emilie Pasche | Douglas Teodoro | Dina Vishnyakova
Proceedings of The Twentieth Text REtrieval Conference, TREC 2011, Gaithersburg, Maryland, USA, November 15-18, 2011

2010

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Literature-based Discovery
Patrick Ruch
2010 Volume 61 Issue 7

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Automatic IPC Encoding and Novelty Tracking for Effective Patent Mining
Douglas Teodoro | Emilie Pasche | Dina Vishnyakova | Julien Gobeill | Patrick Ruch | Christian Lovis
Proceedings of the 8th NTCIR Workshop Meeting on Evaluation of Information Access Technologies: Information Retrieval, Question Answering and Cross-Lingual Information Access, NTCIR-8, National Center of Sciences, Tokyo, Japan, June 15-18, 2010

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Automatic Prior Art Searching and Patent Encoding at CLEF-IP '10
Douglas Teodoro | Julien Gobeill | Emilie Pasche | Dina Vishnyakova | Patrick Ruch | Christian Lovis
CLEF 2010 LABs and Workshops, Notebook Papers, 22-23 September 2010, Padua, Italy

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BiTeM site Report for TREC Chemistry 2010: Impact of Citations Feeback for Patent Prior Art Search and Chemical Compounds Expansion for Ad Hoc Retrieval
Julien Gobeill | Arnaud Gaudinat | Patrick Ruch | Emilie Pasche | Douglas Teodoro | Dina Vishnyakova
Proceedings of The Nineteenth Text REtrieval Conference, TREC 2010, Gaithersburg, Maryland, USA, November 16-19, 2010

2009

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Comparing a rule-based versus statistical system for automatic categorization of MEDLINE documents according to biomedical specialty
Susanne M. Humphrey | Aurélie Névéol | Allen C. Browne | Julien Gobeill | Patrick Ruch | Stéfan Jacques Darmoni
2009 Volume 60 Issue 12

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Simple Pre and Post Processing Strategies for Patent Searching in CLEF Intellectual Property Track 2009
Julien Gobeill | Emilie Pasche | Douglas Teodoro | Patrick Ruch
Multilingual Information Access Evaluation I. Text Retrieval Experiments, 10th Workshop of the Cross-Language Evaluation Forum, CLEF 2009, Corfu, Greece, September 30 - October 2, 2009, Revised Selected Papers

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Taking Benefit of Query and Document Expansion using MeSH Descriptors in Medical ImageCLEF 2009
Julien Gobeill | Douglas Theodoro | Emilie Pasche | Patrick Ruch
Working Notes for CLEF 2009 Workshop co-located with the 13th European Conference on Digital Libraries (ECDL 2009) , Corfù, Greece, September 30 - October 2, 2009

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Exploring a Wide Range of Simple Pre and Post Processing Strategies for Patent Searching in CLEF IP 2009
Julien Gobeill | Douglas Theodoro | Patrick Ruch
Working Notes for CLEF 2009 Workshop co-located with the 13th European Conference on Digital Libraries (ECDL 2009) , Corfù, Greece, September 30 - October 2, 2009

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Report on the TREC 2009 Experiments: Chemical IR Track
Julien Gobeill | Douglas Teodoro | Emilie Pasche | Patrick Ruch
Proceedings of The Eighteenth Text REtrieval Conference, TREC 2009, Gaithersburg, Maryland, USA, November 17-20, 2009

2008

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Query and Document Expansion with Medical Subject Headings Terms at Medical Imageclef 2008
Julien Gobeill | Patrick Ruch | Xin Zhou
Evaluating Systems for Multilingual and Multimodal Information Access, 9th Workshop of the Cross-Language Evaluation Forum, CLEF 2008, Aarhus, Denmark, September 17-19, 2008, Revised Selected Papers

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Text-only Cross-language Image Search at Medical ImageCLEF 2008
Julien Gobeill | Patrick Ruch | Xin Zhou
Working Notes for CLEF 2008 Workshop co-located with the 12th European Conference on Digital Libraries (ECDL 2008) , Aarhus, Denmark, September 17-19, 2008

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First Participation of University and Hospitals of Geneva to Domain-Specific Track in CLEF 2008
Julien Gobeill | Patrick Ruch
Working Notes for CLEF 2008 Workshop co-located with the 12th European Conference on Digital Libraries (ECDL 2008) , Aarhus, Denmark, September 17-19, 2008

2007

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University and Hospitals of Geneva Participating at ImageCLEF 2007
Xin Zhou | Julien Gobeill | Patrick Ruch | Henning Müller
Advances in Multilingual and Multimodal Information Retrieval, 8th Workshop of the Cross-Language Evaluation Forum, CLEF 2007, Budapest, Hungary, September 19-21, 2007, Revised Selected Papers

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University and Hospitals of Geneva at ImageCLEF 2007
Xin Zhou | Julien Gobeill | Patrick Ruch | Henning Müller
Working Notes for CLEF 2007 Workshop co-located with the 11th European Conference on Digital Libraries (ECDL 2007), Budapest, Hungary, September 19-21, 2007

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Vocabulary-Driven Passage Retrieval for Question-Answering in Genomics
Julien Gobeill | Imad Tbahriti | Frédéric Ehrler | Patrick Ruch
Proceedings of The Sixteenth Text REtrieval Conference, TREC 2007, Gaithersburg, Maryland, USA, November 5-9, 2007

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Combining Resources to Find Answers to Biomedical Questions
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
Proceedings of The Sixteenth Text REtrieval Conference, TREC 2007, Gaithersburg, Maryland, USA, November 5-9, 2007

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Recherche d'information et analyse bibliographique appliquées à la mise à jour automatique de Swiss-Prot
Imad Tbahriti | Anne-Lise Veuthey | Patrick Ruch | Julien Gobeill
COnférence en Recherche d'Infomations et Applications - CORIA 2007, 4th French Information Retrieval Conference, Saint-Étienne, France, March 28-30, 2007. Proceedings

2006

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Query and Document Translation by Automatic Text Categorization: A Simple Approach to Establish a Strong Textual Baseline for ImageCLEFmed 2006
Julien Gobeill | Henning Müller | Patrick Ruch
Working Notes for CLEF 2006 Workshop co-located with the 10th European Conference on Digital Libraries (ECDL 2006), Alicante, Spain, September 20-22, 2006

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Translation by Text Categorisation: Medical Image Retrieval in ImageCLEFmed 2006
Julien Gobeill | Henning Müller | Patrick Ruch
Evaluation of Multilingual and Multi-modal Information Retrieval, 7th Workshop of the Cross-Language Evaluation Forum, CLEF 2006, Alicante, Spain, September 20-22, 2006, Revised Selected Papers

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Report on the TREC 2006 Experiment: Genomics Track
Patrick Ruch | Frédéric Ehrler | Julien Gobeill | Imad Tbahriti | Antonio Jimeno-Yepes
Proceedings of the Fifteenth Text REtrieval Conference, TREC 2006, Gaithersburg, Maryland, USA, November 14-17, 2006

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Finding Relevant Passages in Scientific Articles: Fusion of Automatic Approaches vs. an Interactive Team Effort
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
Proceedings of the Fifteenth Text REtrieval Conference, TREC 2006, Gaithersburg, Maryland, USA, November 14-17, 2006

2005

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Using medGIFT and easyIR for the ImageCLEF 2005 Evaluation Tasks
Henning Müller | Antoine Geissbühler | Johan Marty | Christian Lovis | Patrick Ruch
Working Notes for CLEF 2005 Workshop co-located with the 9th European Conference on Digital Libraries (ECDL 2005), Wien, Austria, September 21-22, 2005

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The Use of MedGIFT and EasyIR for ImageCLEF 2005
Henning Müller | Antoine Geissbühler | Johan Marty | Christian Lovis | Patrick Ruch
Accessing Multilingual Information Repositories, 6th Workshop of the Cross-Language Evalution Forum, CLEF 2005, Vienna, Austria, 21-23 September, 2005, Revised Selected Papers

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Report on the TREC 2005 Experiment: Genomics Track
Patrick Ruch | Frédéric Ehrler | Samir Abdou | Jacques Savoy
Proceedings of the Fourteenth Text REtrieval Conference, TREC 2005, Gaithersburg, Maryland, USA, November 15-18, 2005

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Fusion of Knowledge-Intensive and Statistical Approaches for Retrieving and Annotating Textual Genomics Documents
Alan R. Aronson | Dina Demner-Fushman | Susanne M. Humphrey | Jimmy Lin | Patrick Ruch | Miguel E. Ruiz | Lawrence H. Smith | Lorraine K. Tanabe | W. John Wilbur | Hongfang Liu
Proceedings of the Fourteenth Text REtrieval Conference, TREC 2005, Gaithersburg, Maryland, USA, November 15-18, 2005

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Evaluation of Stemming, Query Expansion and Manual Indexing Approaches for the Genomic Task
Samir Abdou | Jacques Savoy | Patrick Ruch
Proceedings of the Fourteenth Text REtrieval Conference, TREC 2005, Gaithersburg, Maryland, USA, November 15-18, 2005

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Features Combination for Extracting Gene Functions from MEDLINE
Patrick Ruch | Laura Perret | Jacques Savoy
Advances in Information Retrieval, 27th European Conference on IR Research, ECIR 2005, Santiago de Compostela, Spain, March 21-23, 2005, Proceedings

2004

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ImageCLEF 2004: Combining Image and Multi-lingual Search for Medical Image Retrieval
Henning Müller | Antoine Geissbühler | Patrick Ruch
Multilingual Information Access for Text, Speech and Images, 5th Workshop of the Cross-Language Evaluation Forum, CLEF 2004, Bath, UK, September 15-17, 2004, Revised Selected Papers

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Report on the ImageCLEF Experiment: How to Visually Retrieve Images from the St. Andrews Collection using GIFT
Henning Müller | Antoine Geissbühler | Patrick Ruch
Working Notes for CLEF 2004 Workshop co-located with the 8th European Conference on Digital Libraries (ECDL 2004), Bath, UK, September 15-17, 2004

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Report on the CLEF Experiment: Combining Image and Multilingual Search for Medical Image Retrieval
Henning Müller | Antoine Geissbühler | Patrick Ruch
Working Notes for CLEF 2004 Workshop co-located with the 8th European Conference on Digital Libraries (ECDL 2004), Bath, UK, September 15-17, 2004

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Report on the TREC 2004 Experiment: Genomics Track
Patrick Ruch | Christine Chichester | Gilles Cohen | Frédéric Ehrler | Paul Fabry | Johan Marty | Henning Müller | Antoine Geissbühler
Proceedings of the Thirteenth Text REtrieval Conference, TREC 2004, Gaithersburg, Maryland, USA, November 16-19, 2004

2003

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Report on the TREC 2003 Experiment: Genomic Track
Patrick Ruch | Gilles Cohen | Frédéric Ehrler | Henning Müller | Giovanni Coray | Hatem Ghorbel | Vincenzo Pallotta | Christine Chichester
Proceedings of The Twelfth Text REtrieval Conference, TREC 2003, Gaithersburg, Maryland, USA, November 18-21, 2003