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. 2008 Nov 6:2008:566-70.

Supporting the design of translational clinical studies through the generation and verification of conceptual knowledge-anchored hypotheses

Philip R O Payne  1 , Tara B Borlawsky, Alan Kwok, Andrew W Greaves
Affiliations

Supporting the design of translational clinical studies through the generation and verification of conceptual knowledge-anchored hypotheses

Philip R O Payne et al. AMIA Annu Symp Proc. .

Abstract

The ability to generate hypotheses based upon the contents of large-scale, heterogeneous data sets is critical to the design of translational clinical studies. In previous reports, we have described the application of a conceptual knowledge engineering technique, known as constructive induction (CI) in order to satisfy such needs. However, one of the major limitations of this method is the need to engage multiple subject matter experts to verify potential hypotheses generated using CI. In this manuscript, we describe an alternative verification technique that leverages published biomedical literature abstracts. Our report will be framed in the context of an ongoing project to generate hypotheses related to the contents of a translational research data repository maintained by the CLL Research Consortium. Such hypotheses will are intended to inform the design of prospective clinical studies that can elucidate the relationships that may exist between biomarkers and patient phenotypes.

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Figures

Figure 1
Figure 1
Overview of constructive induction. Note that Concept 2, which is included in the ontology but does not map to the initial DB construct, is used as an intermediate concept to define a triplet that begins and terminates with data elements that do map to data types in the initial construct.
Figure 2
Figure 2
Overview of study data sources, processes and output.
Figure 3
Figure 3
Comparison of number of abstracts retrieved versus support metric.
See this image and copyright information in PMC

References

    1. Zerhouni EA. US biomedical research: basic, translational, and clinical sciences. Jama. 2005;294(11):1352–8. - PubMed
    1. Sung NS, et al. Central challenges facing the national clinical research enterprise. Jama. 2003;289(10):1278–87. - PubMed
    1. Payne PR, et al. Breaking the translational barriers: the value of integrating biomedical informatics and translational research. J Investig Med. 2005;53(4):192–200. - PubMed
    1. Payne PR, et al. Conceptual knowledge acquisition in biomedicine: A methodological review. J Biomed Inform. 2007;40(5):582–602. - PMC - PubMed
    1. Kipps TJ. Immunobiology of chronic lymphocytic leukemia. Curr Opin Hematol. 2003;10(4):312–8. - PubMed

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