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Building an i2b2-Based Integrated Data Repository for Cancer Research: A Case Study of Ovarian Cancer Registry

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Data Management and Analytics for Medicine and Healthcare (DMAH 2016)

Part of the book series: Lecture Notes in Computer Science ((LNISA,volume 10186))

Abstract

In this study, we describe our preliminary efforts in building an i2b2-based integrated data repository that supports centralized data management for ovarian cancer clinical research, and discuss important lessons learnt that would inspire the evaluation and enhancement for future generic cancer-specific data repository. We collected multiple types of heterogeneous clinical data, including demographic, outcome, chemo-treatment and lab-test information for ovarian cancer. To better integrate different data types, we conducted data normalization procedures through reusing standard codes and creating mappings between local codes and standard vocabularies. We also developed the extract, transform and load (ETL) scripts to load the data into an i2b2 instance. Through further analytic practices, we evaluated major expectations of the systems according to common clinical research needs, including cohort query and identification, clinical data-based hypothesis-testing, and exploratory data-mining. We also identified and discussed outstanding issues we will address through additional enhancement of existing i2b2 system.

Z. Li—Co-first author.

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Acknowledgement

The study is supported in part by a NCI U01 Project – caCDE-QA (1U01CA180940-01A1), R01-CA122443, and an award from Mayo Clinic Ovarian Cancer SPORE (P50 CA136393).

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Authors and Affiliations

  1. Department of Health Sciences Research, Mayo Clinic, Rochester, MN, USA

    Na Hong, Zheng Li, Richard C. Kiefer, Melissa S. Robertson, Ellen L. Goode, Chen Wang & Guoqian Jiang

  2. Department of Gynecologic Oncology, The Third Affiliated Hospital of Kunming Medical University, Kunming, Yunnan, China

    Zheng Li

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  1. Na Hong
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  2. Zheng Li
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  3. Richard C. Kiefer
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  4. Melissa S. Robertson
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  5. Ellen L. Goode
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  6. Chen Wang
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  7. Guoqian Jiang
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Corresponding author

Correspondence to Guoqian Jiang .

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Editors and Affiliations

  1. Stony Brook University, Stony Brook, New York, USA

    Fusheng Wang

  2. University of North Carolina at Charlotte, Charlotte, North Carolina, USA

    Lixia Yao

  3. University of Utah, Salt Lake City, Utah, USA

    Gang Luo

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Hong, N. et al. (2017). Building an i2b2-Based Integrated Data Repository for Cancer Research: A Case Study of Ovarian Cancer Registry. In: Wang, F., Yao, L., Luo, G. (eds) Data Management and Analytics for Medicine and Healthcare. DMAH 2016. Lecture Notes in Computer Science(), vol 10186. Springer, Cham. https://doi.org/10.1007/978-3-319-57741-8_8

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  • DOI: https://doi.org/10.1007/978-3-319-57741-8_8

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  • Publisher Name: Springer, Cham

  • Print ISBN: 978-3-319-57740-1

  • Online ISBN: 978-3-319-57741-8

  • eBook Packages: Computer ScienceComputer Science (R0)

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