Material Related to Digital Privacy, esp. Genomic Privacy


Letters to the Editor

Panel Discussion

Scientific Writings

PLIGHT: A tool to assess privacy risk by inferring identifying characteristics from sparse, noisy genotypes
PS Emani, G Gursoy, AD Miranker, M Gerstein (2021). bioRxiv.

Genomic research data and the justice system.
D Greenbaum, M Gerstein (2022). Science 377: 826-827.

GATTACA is still pertinent 25 years later.
D Greenbaum, M Gerstein (2022). Nat Genet 54: 1758-1760.

Genomic Privacy: Advocating for the Convergence of Legal and Technical Solutions
C Kockan, D Greenbaum, D Lee, M Gerstein (2022). Georgetown Journal of International Affairs 23.2 (2022): 246-253..

Privacy-preserving Model Training for Disease Prediction Using Federated Learning with Differential Privacy.
A Khanna, V Schaffer, G Gursoy, M Gerstein (2022). Annu Int Conf IEEE Eng Med Biol Soc 2022: 1358-1361.

Storing and analyzing a genome on a blockchain.
G Gursoy, CM Brannon, E Ni, S Wagner, A Khanna, M Gerstein (2022). Genome Biol 23: 134.

Functional genomics data: privacy risk assessment and technological mitigation.
G Gursoy, T Li, S Liu, E Ni, CM Brannon, MB Gerstein (2021). Nat Rev Genet 23: 245-258.

Privacy-preserving genotype imputation with fully homomorphic encryption.
G Gursoy, E Chielle, CM Brannon, M Maniatakos, M Gerstein (2021). Cell Syst 13: 173-182e3.

Recovering genotypes and phenotypes using allele-specific genes.
G Gursoy, N Lu, S Wagner, M Gerstein (2021). Genome Biol 22: 263.

Data Sanitization to Reduce Private Information Leakage from Functional Genomics.
G Gursoy, P Emani, CM Brannon, OA Jolanki, A Harmanci, JS Strattan, JM Cherry, AD Miranker, M Gerstein (2020). Cell 183: 905-917e16.

FANCY: fast estimation of privacy risk in functional genomics data.
G Gursoy, CM Brannon, FCP Navarro, M Gerstein (2020). Bioinformatics 36: 5145-5150.

Using blockchain to log genome dataset access: efficient storage and query.
G Gursoy, R Bjornson, ME Green, M Gerstein (2020). BMC Med Genomics 13: 78.

Origins and characterization of variants shared between databases of somatic and germline human mutations.
W Meyerson, J Leisman, FCP Navarro, M Gerstein (2020). BMC Bioinformatics 21: 227.

Using Ethereum blockchain to store and query pharmacogenomics data via smart contracts.
G Gursoy, CM Brannon, M Gerstein (2020). BMC Med Genomics 13: 74.

Analysis of sensitive information leakage in functional genomics signal profiles through genomic deletions.
A Harmanci, M Gerstein (2018). Nat Commun 9: 2453.

Quantification of private information leakage from phenotype-genotype data: linking attacks.
A Harmanci, M Gerstein (2016). Nat Methods 13: 251-6.

Proposed social and technological solutions to issues of data privacy in personal genomics
D Greenbaum, A Harmanci, M Gerstein (2014). IEEE IEEE International Symposium on Ethics in Science, Technology and Engineering.

Proceed with Caution
D Greenbaum, M Gerstein (2013). The Scientist 27:26 (1 Oct.)

Genomics and Privacy: Implications of the New Reality of Closed Data for the Field
D Greenbaum, A Sboner, XJ Mu, M Gerstein (2011). PLoS Comput Biol 7: e1002278.

The role of cloud computing in managing the deluge of potentially private genetic data.
D Greenbaum, M Gerstein (2011). Am J Bioeth 11: 39-41.

RSEQtools: a modular framework to analyze RNA-Seq data using compact, anonymized data summaries.
L Habegger, A Sboner, TA Gianoulis, J Rozowsky, A Agarwal, M Snyder, M Gerstein (2011). Bioinformatics 27: 281-3.

Reproducible Research: Addressing the need for data and code sharing in computational science
Yale Law School Roundtable on Data and Code Sharing (2010). Computing in Science & Engineering 12(5): 8-13 (Sept/Oct).

Social networking and personal genomics: suggestions for optimizing the interaction.
D Greenbaum, M Gerstein (2009). Am J Bioeth 9: 15-9.

Genomic anonymity: have we already lost it?
D Greenbaum, J Du, M Gerstein (2008). Am J Bioeth 8: 71-4.

Network security and data integrity in academia: an assessment and a proposal for large-scale archiving.
A Smith, D Greenbaum, SM Douglas, M Long, M Gerstein (2005). Genome Biol 6: 119.

Impediments to database interoperation: legal issues and security concerns.
D Greenbaum, A Smith, M Gerstein (2005). Nucleic Acids Res 33: D3-4.

Computer security in academia-a potential roadblock to distributed annotation of the human genome.
D Greenbaum, SM Douglas, A Smith, J Lim, M Fischer, M Schultz, M Gerstein (2004). Nat Biotechnol 22: 771-2.

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