Literature DB >> 32601475

Privacy challenges and research opportunities for genomic data sharing.

Luca Bonomi1, Yingxiang Huang2, Lucila Ohno-Machado2,3.   

Abstract

The sharing of genomic data holds great promise in advancing precision medicine and providing personalized treatments and other types of interventions. However, these opportunities come with privacy concerns, and data misuse could potentially lead to privacy infringement for individuals and their blood relatives. With the rapid growth and increased availability of genomic datasets, understanding the current genome privacy landscape and identifying the challenges in developing effective privacy-protecting solutions are imperative. In this work, we provide an overview of major privacy threats identified by the research community and examine the privacy challenges in the context of emerging direct-to-consumer genetic-testing applications. We additionally present general privacy-protection techniques for genomic data sharing and their potential applications in direct-to-consumer genomic testing and forensic analyses. Finally, we discuss limitations in current privacy-protection methods, highlight possible mitigation strategies and suggest future research opportunities for advancing genomic data sharing.

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Mesh:

Year:  2020        PMID: 32601475      PMCID: PMC7761157          DOI: 10.1038/s41588-020-0651-0

Source DB:  PubMed          Journal:  Nat Genet        ISSN: 1061-4036            Impact factor:   38.330


  58 in total

1.  Genetics. Genomic research and human subject privacy.

Authors:  Zhen Lin; Art B Owen; Russ B Altman
Journal:  Science       Date:  2004-07-09       Impact factor: 47.728

2.  Genomic privacy and limits of individual detection in a pool.

Authors:  Sriram Sankararaman; Guillaume Obozinski; Michael I Jordan; Eran Halperin
Journal:  Nat Genet       Date:  2009-08-23       Impact factor: 38.330

3.  A decade's perspective on DNA sequencing technology.

Authors:  Elaine R Mardis
Journal:  Nature       Date:  2011-02-10       Impact factor: 49.962

Review 4.  Sequencing technologies - the next generation.

Authors:  Michael L Metzker
Journal:  Nat Rev Genet       Date:  2009-12-08       Impact factor: 53.242

5.  Disclosure of APOE genotype for risk of Alzheimer's disease.

Authors:  Robert C Green; J Scott Roberts; L Adrienne Cupples; Norman R Relkin; Peter J Whitehouse; Tamsen Brown; Susan LaRusse Eckert; Melissa Butson; A Dessa Sadovnick; Kimberly A Quaid; Clara Chen; Robert Cook-Deegan; Lindsay A Farrer
Journal:  N Engl J Med       Date:  2009-07-16       Impact factor: 91.245

6.  Assessing the privacy risks of data sharing in genomics.

Authors:  C Heeney; N Hawkins; J de Vries; P Boddington; J Kaye
Journal:  Public Health Genomics       Date:  2010-03-29       Impact factor: 2.000

Review 7.  Genome privacy: challenges, technical approaches to mitigate risk, and ethical considerations in the United States.

Authors:  Shuang Wang; Xiaoqian Jiang; Siddharth Singh; Rebecca Marmor; Luca Bonomi; Dov Fox; Michelle Dow; Lucila Ohno-Machado
Journal:  Ann N Y Acad Sci       Date:  2016-09-28       Impact factor: 5.691

8.  The "All of Us" Research Program.

Authors:  Joshua C Denny; Joni L Rutter; David B Goldstein; Anthony Philippakis; Jordan W Smoller; Gwynne Jenkins; Eric Dishman
Journal:  N Engl J Med       Date:  2019-08-15       Impact factor: 176.079

9.  Genetic counseling and testing for Alzheimer disease: joint practice guidelines of the American College of Medical Genetics and the National Society of Genetic Counselors.

Authors:  Jill S Goldman; Susan E Hahn; Jennifer Williamson Catania; Susan LaRusse-Eckert; Melissa Barber Butson; Malia Rumbaugh; Michelle N Strecker; J Scott Roberts; Wylie Burke; Richard Mayeux; Thomas Bird
Journal:  Genet Med       Date:  2011-06       Impact factor: 8.822

10.  Resolving individuals contributing trace amounts of DNA to highly complex mixtures using high-density SNP genotyping microarrays.

Authors:  Nils Homer; Szabolcs Szelinger; Margot Redman; David Duggan; Waibhav Tembe; Jill Muehling; John V Pearson; Dietrich A Stephan; Stanley F Nelson; David W Craig
Journal:  PLoS Genet       Date:  2008-08-29       Impact factor: 5.917

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  22 in total

Review 1.  Functional genomics data: privacy risk assessment and technological mitigation.

Authors:  Gamze Gürsoy; Tianxiao Li; Susanna Liu; Eric Ni; Charlotte M Brannon; Mark B Gerstein
Journal:  Nat Rev Genet       Date:  2021-11-10       Impact factor: 53.242

Review 2.  CRISPR-derived genome editing therapies: Progress from bench to bedside.

Authors:  Holly A Rees; Alex C Minella; Cameron A Burnett; Alexis C Komor; Nicole M Gaudelli
Journal:  Mol Ther       Date:  2021-10-05       Impact factor: 11.454

3.  Mitigating Membership Inference in Deep Learning Applications with High Dimensional Genomic Data.

Authors:  Chonghao Zhang; Luca Bonomi
Journal:  IEEE Int Conf Healthc Inform       Date:  2022-09-08

4.  Parallel and private generalized suffix tree construction and query on genomic data.

Authors:  Md Momin Al Aziz; Parimala Thulasiraman; Noman Mohammed
Journal:  BMC Genom Data       Date:  2022-06-17

Review 5.  A scoping review of distributed ledger technology in genomics: thematic analysis and directions for future research.

Authors:  Mikael Beyene; Philipp A Toussaint; Scott Thiebes; Matthias Schlesner; Benedikt Brors; Ali Sunyaev
Journal:  J Am Med Inform Assoc       Date:  2022-07-12       Impact factor: 7.942

6.  A Framework for Augmented Intelligence in Allergy and Immunology Practice and Research-A Work Group Report of the AAAAI Health Informatics, Technology, and Education Committee.

Authors:  Paneez Khoury; Renganathan Srinivasan; Sujani Kakumanu; Sebastian Ochoa; Anjeni Keswani; Rachel Sparks; Nicholas L Rider
Journal:  J Allergy Clin Immunol Pract       Date:  2022-03-15

7.  Optimal vocabulary selection approaches for privacy-preserving deep NLP model training for information extraction and cancer epidemiology.

Authors:  Hong-Jun Yoon; Christopher Stanley; J Blair Christian; Hilda B Klasky; Andrew E Blanchard; Eric B Durbin; Xiao-Cheng Wu; Antoinette Stroup; Jennifer Doherty; Stephen M Schwartz; Charles Wiggins; Mark Damesyn; Linda Coyle; Georgia D Tourassi
Journal:  Cancer Biomark       Date:  2022       Impact factor: 3.828

8.  Complicated legacies: The human genome at 20.

Authors:  Kathryn Maxson Jones; Robert Cook-Deegan; Charles N Rotimi; Shawneequa L Callier; Amy R Bentley; Hallam Stevens; Kathryn A Phillips; Jeroen P Jansen; Christopher F Weyant; Dorothy E Roberts; Dina Zielinski; Yaniv Erlich; Nanibaa' A Garrison; Stephanie Russo Carroll; Pilar N Ossorio; Yves Moreau; Maya Wang
Journal:  Science       Date:  2021-02-04       Impact factor: 63.714

9.  Toward better governance of human genomic data.

Authors:  Kieran C O'Doherty; Mahsa Shabani; Edward S Dove; Heidi Beate Bentzen; Pascal Borry; Michael M Burgess; Don Chalmers; Jantina De Vries; Lisa Eckstein; Stephanie M Fullerton; Eric Juengst; Kazuto Kato; Jane Kaye; Bartha Maria Knoppers; Barbara A Koenig; Spero M Manson; Kimberlyn M McGrail; Amy L McGuire; Eric M Meslin; Dianne Nicol; Barbara Prainsack; Sharon F Terry; Adrian Thorogood; Wylie Burke
Journal:  Nat Genet       Date:  2021-01       Impact factor: 41.307

10.  The Impact of Communicating Uncertainty on Public Responses to Precision Medicine Research.

Authors:  Chelsea L Ratcliff; Bob Wong; Jakob D Jensen; Kimberly A Kaphingst
Journal:  Ann Behav Med       Date:  2021-10-27
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