The phrase-based vector space model for automatic retrieval of free-text medical documents

  • Authors:

  • Wenlei Mao;Wesley W. Chu

  • Affiliations:

  • Computer Science Department, University of California, 3731H Boelter Hall, Los Angeles, CA 90095-1596, United States;Computer Science Department, University of California, 3731H Boelter Hall, Los Angeles, CA 90095-1596, United States

  • Venue:
  • Data & Knowledge Engineering
  • Year:
  • 2007

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Abstract

Objective: To develop a document indexing scheme that improves the retrieval effectiveness for free-text medical documents. Design: The phrase-based vector space model (VSM) uses multi-word phrases as indexing terms. Each phrase consists of a concept in the unified medical language system (UMLS) and its corresponding component word stems. The similarity between concepts are defined by their relations in a hypernym hierarchy derived from UMLS. After defining the similarity between two phrases by their stem overlaps and the similarity between the concepts they represent, we define the similarity between two documents as the cosine of the angle between their corresponding phrase vectors. This paper reports the development and the validation of the phrase-based VSM. Measurement: We compare the retrieval effectiveness of different vector space models using two standard test collections, OHSUMED and Medlars. OHSUMED contains 105 queries and 14,430 documents, and Medlars contains 30 queries and 1033 documents. Each document in the test collections is judged by human experts to be either relevant or non-relevant to each query. The retrieval effectiveness is measured by precision and recall. Results: The phrase-based VSM is significantly more effective than the current gold standard-the stem-based VSM. Such significant retrieval effectiveness improvements are observed in both the exhaustive search and cluster-based document retrievals. Conclusion: The phrase-based VSM is a better indexing scheme than the stem-based VSM. Medical document retrieval using the phrase-based VSM is significantly more effective than that using the stem-based VSM.