Demographics identification: Variable extraction resource (DIVER)


Conference Paper

Lack of standardization in representing phenotype data generated in different studies is a major barrier to data reuse for cross study analyses. To address this issue, we developed DIVER, a tool that identifies and standardizes demographic variables in dbGaP, based on simple natural language processing and standardized terminology mapping. In its evaluation using variables (N=3,565) from a range of pulmonary studies in dbGaP, DIVER proved to be an effective approach to standardizing dbGaP variables by successfully identifying demographic variables with high rates of recall and precision (98% and 94%, respectively). In addition, DIVER correctly modeled 79% of the identified demographic variables at the core semantic level. Examination of variables that DIVER could not handle shed light on where our tool needs enhancement so it can further improve its semantic modeling accuracy. DIVER is an important component of a system for phenotype discovery in dbGaP studies. © 2012 IEEE.

Full Text

Duke Authors

Cited Authors

  • Hsieh, A; Doan, S; Conway, M; Lin, KW; Kim, H

Published Date

  • December 1, 2012

Published In

  • Proceedings 2012 Ieee 2nd Conference on Healthcare Informatics, Imaging and Systems Biology, Hisb 2012

Start / End Page

  • 40 - 49

International Standard Book Number 13 (ISBN-13)

  • 9780769549217

Digital Object Identifier (DOI)

  • 10.1109/HISB.2012.17

Citation Source

  • Scopus