Overview of the ShARe/CLEF eHealth Evaluation Lab 2013

  • Hanna Suominen
  • Sanna Salanterä
  • Sumithra Velupillai
  • Wendy W. Chapman
  • Guergana Savova
  • Noemie Elhadad
  • Sameer Pradhan
  • Brett R. South
  • Danielle L. Mowery
  • Gareth J. F. Jones
  • Johannes Leveling
  • Liadh Kelly
  • Lorraine Goeuriot
  • David Martinez
  • Guido Zuccon
Part of the Lecture Notes in Computer Science book series (LNCS, volume 8138)

Abstract

Discharge summaries and other free-text reports in healthcare transfer information between working shifts and geographic locations. Patients are likely to have difficulties in understanding their content, because of their medical jargon, non-standard abbreviations, and ward-specific idioms. This paper reports on an evaluation lab with an aim to support the continuum of care by developing methods and resources that make clinical reports in English easier to understand for patients, and which helps them in finding information related to their condition. This ShARe/CLEFeHealth2013 lab offered student mentoring and shared tasks: identification and normalisation of disorders (1a and 1b) and normalisation of abbreviations and acronyms (2) in clinical reports with respect to terminology standards in healthcare as well as information retrieval (3) to address questions patients may have when reading clinical reports. The focus on patients’ information needs as opposed to the specialised information needs of physicians and other healthcare workers was the main feature of the lab distinguishing it from previous shared tasks. De-identified clinical reports for the three tasks were from US intensive care and originated from the MIMIC II database. Other text documents for Task 3 were from the Internet and originated from the Khresmoi project. Task 1 annotations originated from the ShARe annotations. For Tasks 2 and 3, new annotations, queries, and relevance assessments were created. 64, 56, and 55 people registered their interest in Tasks 1, 2, and 3, respectively. 34 unique teams (3 members per team on average) participated with 22, 17, 5, and 9 teams in Tasks 1a, 1b, 2 and 3, respectively. The teams were from Australia, China, France, India, Ireland, Republic of Korea, Spain, UK, and USA. Some teams developed and used additional annotations, but this strategy contributed to the system performance only in Task 2. The best systems had the F1 score of 0.75 in Task 1a; Accuracies of 0.59 and 0.72 in Tasks 1b and 2; and Precision at 10 of 0.52 in Task 3. The results demonstrate the substantial community interest and capabilities of these systems in making clinical reports easier to understand for patients. The organisers have made data and tools available for future research and development.

Keywords

Information Retrieval Evaluation Medical Informatics Test-set Generation Text Classification Text Segmentation 

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Copyright information

© Springer-Verlag Berlin Heidelberg 2013

Authors and Affiliations

  • Hanna Suominen
    • 1
  • Sanna Salanterä
    • 2
  • Sumithra Velupillai
    • 3
  • Wendy W. Chapman
    • 4
  • Guergana Savova
    • 5
  • Noemie Elhadad
    • 6
  • Sameer Pradhan
    • 5
  • Brett R. South
    • 7
  • Danielle L. Mowery
    • 8
  • Gareth J. F. Jones
    • 9
  • Johannes Leveling
    • 9
  • Liadh Kelly
    • 9
  • Lorraine Goeuriot
    • 9
  • David Martinez
    • 10
  • Guido Zuccon
    • 11
  1. 1.NICTA and The Australian National UniversityAustralia
  2. 2.University of TurkuFinland
  3. 3.DSV Stockholm UniversitySweden
  4. 4.University of CaliforniaSan DiegoUSA
  5. 5.Harvard UniversityUSA
  6. 6.Columbia UniversityUSA
  7. 7.University of UtahUSA
  8. 8.University of PittsburghUSA
  9. 9.Dublin City UniversityIreland
  10. 10.NICTA and The University of MelbourneAustralia
  11. 11.The Australian e-Health Research CentreCSIROAustralia

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