A Community Effort to Protect Genomic Data Sharing, Collaboration and Outsourcing

Genomic Medicine (2017) No.2:33

San Diego Legal Studies Paper No. 18-342

7 Pages Posted: 9 Apr 2018  

Shuang Wang

University of California, San Diego (UCSD)

Xiaoqian Jiang

University of California, San Diego (UCSD)

Haixu Tang

Indiana University Bloomington - School of Informatics and Computing

XiaoFeng Wang

University of California, San Diego (UCSD) - Department of Biomedical Informatics

Diyue Bu

Indiana University Bloomington - School of Informatics and Computing

Knox Carey

GeneCloud Intertrust

Stephanie OM Dyke

McGill University - Department of Human Genetics

Dov Fox

University of San Diego: School of Law

Chao Jiang

University of California, San Diego (UCSD)

Kristin Lauter

Microsoft Corporation - Microsoft Research - Redmond

Bradley Malin

Vanderbilt University - School of Medicine

Heidi Sofia

National Institutes of Health (NIH) - National Human Genome Research Institute

Amalio Telenti

J. Craig Venter Institute

Lei Wang

Indiana University Bloomington - School of Informatics and Computing

Wenhao Wang

Indiana University Bloomington - School of Informatics and Computing

Lucila Ohno-Machado

University of California, San Diego (UCSD)

Date Written: 2017

Abstract

The human genome can reveal sensitive information and is potentially re-identifiable, which raises privacy and security concerns about sharing such data on wide scales. In 2016, we organized the third Critical Assessment of Data Privacy and Protection competition as a community effort to bring together biomedical informaticists, computer privacy and security researchers, and scholars in ethical, legal, and social implications (ELSI) to assess the latest advances on privacy-preserving techniques for protecting human genomic data. Teams were asked to develop novel protection methods for emerging genome privacy challenges in three scenarios: Track (1) data sharing through the Beacon service of the Global Alliance for Genomics and Health. Track (2) collaborative discovery of similar genomes between two institutions; and Track (3) data outsourcing to public cloud services. The latter two tracks represent continuing themes from our 2015 competition, while the former was new and a response to a recently established vulnerability. The winning strategy for Track 1 mitigated the privacy risk by hiding approximately 11% of the variation in the database while permitting around 160,000 queries, a significant improvement over the baseline. The winning strategies in Tracks 2 and 3 showed significant progress over the previous competition by achieving multiple orders of magnitude performance improvement in terms of computational runtime and memory requirements. The outcomes suggest that applying highly optimized privacy-preserving and secure computation techniques to safeguard genomic data sharing and analysis is useful. However, the results also indicate that further efforts are needed to refine these techniques into practical solutions.

Keywords: GDS, Genomic data sharing, Genome informatics, Genomic analysis, Human genomic data privacy, Genetic diseases

JEL Classification: K10

Suggested Citation

Wang, Shuang and Jiang, Xiaoqian and Tang, Haixu and Wang, XiaoFeng and Bu, Diyue and Carey, Knox and Dyke, Stephanie OM and Fox, Dov and Jiang, Chao and Lauter, Kristin and Malin, Bradley and Sofia, Heidi and Telenti, Amalio and Wang, Lei and Wang, Wenhao and Ohno-Machado, Lucila, A Community Effort to Protect Genomic Data Sharing, Collaboration and Outsourcing (2017). Genomic Medicine (2017) No.2:33; San Diego Legal Studies Paper No. 18-342. Available at SSRN: https://ssrn.com/abstract=3157968 or http://dx.doi.org/10.2139/ssrn.3157968

Shuang Wang

University of California, San Diego (UCSD) ( email )

9500 Gilman Drive
Mail Code 0502
La Jolla, CA 92093-0112
United States

Xiaoqian Jiang

University of California, San Diego (UCSD) ( email )

9500 Gilman Drive
Mail Code 0502
La Jolla, CA 92093-0112
United States

Haixu Tang

Indiana University Bloomington - School of Informatics and Computing ( email )

Informatics West, Room 204
901 E. 10th Street
Bloomington, IN 47408
United States

XiaoFeng Wang

University of California, San Diego (UCSD) - Department of Biomedical Informatics ( email )

9500 Gilman Drive
La Jolla, CA 92093
United States

Diyue Bu

Indiana University Bloomington - School of Informatics and Computing

Informatics West, Room 204
901 E. 10th Street
Bloomington, IN 47408
United States

Knox Carey

GeneCloud Intertrust

920 Steward Drive
Sunnyvale, CA 94085
United States

Stephanie Dyke

McGill University - Department of Human Genetics

3640 rue University
Rm W-315, Strathcona Anatomy & Dentistry Building
Montréal, QC H3A 0C7
Canada

Dov Fox (Contact Author)

University of San Diego: School of Law ( email )

5998 Alcalá Park
San Diego, CA 92110
United States
(619) 260-4600 (Phone)

HOME PAGE: http://www.sandiego.edu/law/news/news_releases/newslist.php?_focus=44957

Chao Jiang

University of California, San Diego (UCSD)

9500 Gilman Drive
Mail Code 0502
La Jolla, CA 92093-0112
United States

Kristin Lauter

Microsoft Corporation - Microsoft Research - Redmond ( email )

Building 99
Redmond, WA
United States

Bradley Malin

Vanderbilt University - School of Medicine ( email )

Nashville, TN 37232-0685
United States

Heidi Sofia

National Institutes of Health (NIH) - National Human Genome Research Institute ( email )

Building 29, Room $a56
49 Convent Dr, MSC 4472
Bethesda, MD 20892
United States

Amalio Telenti

J. Craig Venter Institute ( email )

4120 Capricorn Lane
La Jolla, CA 92037
United States

Lei Wang

Indiana University Bloomington - School of Informatics and Computing

Informatics West, Room 204
901 E. 10th Street
Bloomington, IN 47408
United States

Wenhao Wang

Indiana University Bloomington - School of Informatics and Computing

Informatics West, Room 204
901 E. 10th Street
Bloomington, IN 47408
United States

Lucila Ohno-Machado

University of California, San Diego (UCSD) ( email )

9500 Gilman Drive
Mail Code 0502
La Jolla, CA 92093-0112
United States

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