Mining biomedical data using MetaMap Transfer (MMtx) and the Unified Medical Language System (UMLS).


Journal Article

Detailed instruction is described for mapping unstructured, free text data into common biomedical concepts (drugs, diseases, anatomy, and so on) found in the Unified Medical Language System using MetaMap Transfer (MMTx). MMTx can be used in applications including mining and inferring relationship between concepts in MEDLINE publications by transforming free text into computable concepts. MMTx is in general not designed to be an end-user program; therefore, a simple analysis is described using MMTx for users without any programming knowledge. In addition, two Java template files are provided for automated processing of the output from MMTx and users can adopt this with minimum Java program experience.

Full Text

Duke Authors

Cited Authors

  • Osborne, JD; Lin, S; Zhu, L; Kibbe, WA

Published Date

  • 2007

Published In

Volume / Issue

  • 408 /

Start / End Page

  • 153 - 169

PubMed ID

  • 18314582

Pubmed Central ID

  • 18314582

International Standard Serial Number (ISSN)

  • 1064-3745

Digital Object Identifier (DOI)

  • 10.1007/978-1-59745-547-3_9


  • eng

Conference Location

  • United States