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J Am Med Inform Assoc. 2015 Nov;22(6):1132-6. doi: 10.1093/jamia/ocv059. Epub 2015 Jul 2.

The center for causal discovery of biomedical knowledge from big data.

Author information

1
Department of Biomedical Informatics, University of Pittsburgh, Pittsburgh, PA, USA gfc@pitt.edu.
2
Department of Computational and Systems Biology, University of Pittsburgh, Pittsburgh, PA, USA.
3
Department of Biomedical Informatics, University of Pittsburgh, Pittsburgh, PA, USA.
4
Department of Computational and Systems Biology, University of Pittsburgh, Pittsburgh, PA, USA Institute for Personalized Medicine, University of Pittsburgh and University of Pittsburgh Medical Center (UPMC), Pittsburgh, PA, USA.
5
Department of Philosophy, Carnegie Mellon University, Pittsburgh, PA, USA.
6
Institute for Personalized Medicine, University of Pittsburgh and University of Pittsburgh Medical Center (UPMC), Pittsburgh, PA, USA.
7
Department of Pharmacology and Chemical Biology, University of Pittsburgh, Pittsburgh, PA, USA.
8
Dietrich College of Humanities and Social Sciences, Carnegie Mellon University, Pittsburgh, PA, USA.

Abstract

The Big Data to Knowledge (BD2K) Center for Causal Discovery is developing and disseminating an integrated set of open source tools that support causal modeling and discovery of biomedical knowledge from large and complex biomedical datasets. The Center integrates teams of biomedical and data scientists focused on the refinement of existing and the development of new constraint-based and Bayesian algorithms based on causal Bayesian networks, the optimization of software for efficient operation in a supercomputing environment, and the testing of algorithms and software developed using real data from 3 representative driving biomedical projects: cancer driver mutations, lung disease, and the functional connectome of the human brain. Associated training activities provide both biomedical and data scientists with the knowledge and skills needed to apply and extend these tools. Collaborative activities with the BD2K Consortium further advance causal discovery tools and integrate tools and resources developed by other centers.

KEYWORDS:

Big Data to knowledge (BD2K); biomedical knowledge; biomedical science; causal discovery; center of excellence

PMID:
26138794
PMCID:
PMC5009908
DOI:
10.1093/jamia/ocv059
[Indexed for MEDLINE]
Free PMC Article

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