Integrating Data for Analysis, Anonymization and Sharing

Integrating Data for Analysis, Anonymization and Sharing (2010 - 2015)

Contemporary biomedical and behavioral research requires significant computational resources, and the divide between researchers with and without these resources is increasing. By integrating data for analysis, anonymization, and sharing, this National Center for Biomedical Computing will decrease the gap and accelerate discoveries. It will provide innovative services, algorithms, open-source software, infrastructure, and training to facilitate data analysis and exchange between biomedical researchers.

Selected Publications, Papers, and Presentations

  • Kim H. El-Kareh R, Goel A, Vineet FN, Chapman WW. An approach to improve LOINC mapping through augmentation of local test names. J Biomed Inform. 2012 Aug;45(4):651-7. doi:10.1016/j.jbi.2011.12.004. Epub 2011 Dec 21. PubMed PMID: 22210167; PubMed Central PMCID: 3340474.
  • Ohno-Machado L, Bafna V, Boxwala AA, Chapman BE, Chapman WW, Chaudhuri K, Day ME, Farcus C, Heintzman ND, Jiang X, Kim H, Matheny ME, Resnic FS, Vinterbo SA; iDASH team. iDASH: intergrating data for analysis, anonymization, and sharing. J Am Med Inform Assoc. 2012 Mar-Apr;19(2):196-201. doi:10.1136/amiajnl-2011-000538. Epub 2011 Nov 10. PubMed PMID: 220812224; PubMed Central PMCID: PMC32777627.
  • South BR, Mowery DL, Leng J, Meystre SM, Chapman WW. A system usability study assessing a machine-assisted interactive interface to support annotation of protected health information in clinical texts. AMIA Symp Proc. Washington DC. 2014.
  • South BR, Mowery DL, Suo Y, Ferrández O, Meystre SM, Chapman WW. Evaluating the effects of machine pre-annotation and an interactive annotation interface on manual de-identification of clinical text. J Biomed Inform. Medical Privacy. 2014.
  • South BR, Mowery DL, Suo Y, Levy E, Ashfaq S, Shevi E, Wang L, Zhang M, Meystre SM, Chapman WW. Ensuring adequate coverage to build a publicly available corpus of de-identified clinical documents. NLP Annotation Workshop. San Diego, CA. 2012.
  • South BR, Mowery DL, Ferrández O, Shen S, Suo Y, Zhang M, Chen A, Wang L, Meystre SM, Chapman WW. On the road towards developing a publicly available corpus of de-identified clinical texts. Annu AMIA Symp. Chicago, IL. 2012
  • Chapman WW, Nadkarni PM, Hirchman L, D’Avolio LW, Savova G, Uzuner O. Overcoming barriers to NLP for clinical text: the role of shared tasks and the need for additional creative solutions. J AM Med Inform Assoc. 2011 Sep-Oct;18(5):540-543.
  • PI: 
    Lucila Ohno-Machado
    Wendy Chapman (Core Director)