GenePING: secure, scalable management of personal genomic data.

BMC Genomics
Ben Adida, Isaac S Kohane

Abstract

Patient genomic data are rapidly becoming part of clinical decision making. Within a few years, full genome expression profiling and genotyping will be affordable enough to perform on every individual. The management of such sizeable, yet fine-grained, data in compliance with privacy laws and best practices presents significant security and scalability challenges. We present the design and implementation of GenePING, an extension to the PING personal health record system that supports secure storage of large, genome-sized datasets, as well as efficient sharing and retrieval of individual datapoints (e.g. SNPs, rare mutations, gene expression levels). Even with full access to the raw GenePING storage, an attacker cannot discover any stored genomic datapoint on any single patient. Given a large-enough number of patient records, an attacker cannot discover which data corresponds to which patient, or even the size of a given patient's record. The computational overhead of GenePING's security features is a small constant, making the system usable, even in emergency care, on today's hardware. GenePING is the first personal health record management system to support the efficient and secure storage and sharing of large genomic dataset...Continue Reading

References

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Citations

Aug 9, 2011·ACS Chemical Biology·Katherine VolzingYiannis N Kaznessis
Sep 14, 2013·Genetics in Medicine : Official Journal of the American College of Medical Genetics·Andrea HartzlerSusan Brown Trinidad
Sep 21, 2013·Genetics in Medicine : Official Journal of the American College of Medical Genetics·Casey Lynnette OverbyGeorge Hripcsak
Sep 14, 2007·BMC Medical Informatics and Decision Making·Kenneth D MandlJonathan M Abbett
Jul 29, 2008·BMC Medical Genomics·Christopher A CassaKenneth D Mandl
Feb 1, 2011·Journal of Medical Internet Research·Luis Fernandez-LuqueJason Bonander
Aug 25, 2012·Journal of Medical Internet Research·Inmaculada Carrión SeñorAmbrosio Toval
Sep 7, 2013·Genetics in Medicine : Official Journal of the American College of Medical Genetics·Jennifer Q Zhao, Susanne B Haga
Nov 6, 2012·Journal of the American Medical Informatics Association : JAMIA·Christopher A CassaKenneth D Mandl
Apr 27, 2007·Journal of the American Medical Informatics Association : JAMIA·Andrew J McMurryKenneth D Mandl
May 15, 2007·Science·Isaac S KohaneLouis M Kunkel

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Methods Mentioned

BETA
genotyping

Software Mentioned

Tomcat
PING
AES
PingTalk
GenePING
Berkeley DB
SQL
PING Display
JAXB

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