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Facilitating Federated Genomic Data Analysis by Identifying Record Correlations while Ensuring Privacy [article]

Leonard Dervishi, Xinyue Wang, Wentao Li, Anisa Halimi, Jaideep Vaidya, Xiaoqian Jiang, Erman Ayday
2022 arXiv   pre-print
In this paper, we take the first step towards identifying correlated records across multiple data repositories in a privacy-preserving manner.  ...  However, the data is sensitive, and therefore cannot be easily centralized. Furthermore, there may be correlations in the data, which if not detected, can impact the analysis.  ...  membership inference (by using the data that is obtained as a result of un-shuffling) via a power analysis.  ... 
arXiv:2203.05664v1 fatcat:6oouyofyjvhljpeatcxn45qgyu

Privacy-Utility Equilibrium Protocol for Federated Aggregating Multiparty Genome Data

2021 Journal of networking and network applications  
Second, we constructed the federated aggregation model of multiparty genome data by combining random perturbation method of genome data guaranteeing desired data utility with federated comparing update  ...  Cloud server aggregates a large amount of genome data from multi genome donors to facilitate scientific research.  ...  [20] proposed edge differential privacy by introducing correlation coefficient.  ... 
doi:10.33969/j-nana.2021.010303 fatcat:t65ym4cvz5cnlci6q2zb3alo7a

Facilitating a culture of responsible and effective sharing of cancer genome data

Lillian L Siu, Mark Lawler, David Haussler, Bartha Maria Knoppers, Jeremy Lewin, Daniel J Vis, Rachel G Liao, Fabrice Andre, Ian Banks, J Carl Barrett, Carlos Caldas, Anamaria Aranha Camargo (+11 others)
2016 Nature Medicine  
A critical point has now been reached where analysis and storage of annotated clinical and genomic information in unconnected silos will stall the advancement of precision cancer care.  ...  This Perspective from the GA4GH Clinical Working Group Cancer Task Team highlights the data aggregation challenges faced by the field, suggests potential collaborative solutions, and describes how GA4GH  ...  the privacy and security of shared genomic and clinical data.  ... 
doi:10.1038/nm.4089 pmid:27149219 pmcid:PMC4995884 fatcat:cyax6vinhvd4tbwvgyk3lrqahu

The Need for a Privacy Standard for Medical Devices That Transmit Protected Health Information Used in the Precision Medicine Initiative for Diabetes and Other Diseases

David C. Klonoff, W. Nicholson Price
2016 Journal of Diabetes Science and Technology  
/genomic information and sensor data.  ...  Privacy is an important concern for the Precision Medicine Initiative (PMI) because success of this initiative will require the public to be willing to participate by contributing large amounts of genetic  ...  Medical record data and biospecimen data donated to the PMI are not covered by the core federal health privacy law, HIPAA, while in the hands of the PMI because the NIH, which is spearheading the initiative  ... 
doi:10.1177/1932296816680006 pmid:27920271 pmcid:PMC5478037 fatcat:ivfz3cujkbfv7orm522ucsv7wi

Biomedical data privacy: problems, perspectives, and recent advances

B. A. Malin, K. E. Emam, C. M. O'Keefe
2013 JAMIA Journal of the American Medical Informatics Association  
An empirical analysis 61 000 Vanderbilt patients' records illustrates that such perturbation makes it highly unlikely that a patient's record could be matched to a group of less than 10 individuals while  ...  Papers in the technical track While law and policy codify the rights and requirements for managing data privacy in the biomedical domain, information technology is necessary to uphold and ensure their  ... 
doi:10.1136/amiajnl-2012-001509 pmid:23221359 pmcid:PMC3555341 fatcat:qpfvxi44anhltfkyu5hytowsgm

Accelerating Genomic Data Generation and Facilitating Genomic Data Access Using Decentralization, Privacy-Preserving Technologies and Equitable Compensation

Dennis Grishin, Kamal Obbad, Preston Estep, Kevin Quinn, Sarah Wait Zaranek, Alexander Wait Zaranek, Ward Vandewege, Tom Clegg, Nico César, Mirza Cifric, George Church
2018 Blockchain in Healthcare Today  
Data access control on the blockchain can ensure transparent consent management, while privacy-preserving technologies can help protect shared genomic data.  ...  Federated data storage systems have been implemented to facilitate genomic data sharing, privacy-preserving computing has been utilized to protect genomic data privacy, and different compensation models  ...  Conflict of Interest All authors are employees, advisors, or collaborators of Nebula Genomics. Funding Statement Development of the Nebula platform is funded by Nebula Foundation.  ... 
doi:10.30953/bhty.v1.34 fatcat:bgjyvrf54vglljkwskkl5dvwfu

Privacy-preserving Artificial Intelligence Techniques in Biomedicine [article]

Reihaneh Torkzadehmahani, Reza Nasirigerdeh, David B. Blumenthal, Tim Kacprowski, Markus List, Julian Matschinske, Julian Späth, Nina Kerstin Wenke, Béla Bihari, Tobias Frisch, Anne Hartebrodt, Anne-Christin Hausschild (+13 others)
2020 arXiv   pre-print
Hence, there has been a substantial effort to develop AI methods that can learn from sensitive data while protecting individuals' privacy.  ...  This considerable privacy risk has led to restrictions in accessing genomic and other biomedical data, which is detrimental for collaborative research and impedes scientific progress.  ...  ML and JB were also supported by BMBF project SYMBOD (01ZX1910D).  ... 
arXiv:2007.11621v2 fatcat:qnmzqvqn5fgonjiwmudjlzwelm

Machine learning and genomics: precision medicine versus patient privacy

C.-A. Azencott
2018 Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences  
frameworks for genomic data sharing.  ...  However, these advances require collecting and sharing among researchers large amounts of genomic data, which generates much concern about privacy.  ...  For example, the medical records of the governor of Massachusetts were identified by crossing anonymized medical data with public voter registration records.  ... 
doi:10.1098/rsta.2017.0350 pmid:30082298 fatcat:mwzuk7xvdbbmpkmjjte5avg6lq

Federated Learning Approach to Protect Healthcare Data over Big Data Scenario

Gaurav Dhiman, Sapna Juneja, Hamidreza Mohafez, Ibrahim El-Bayoumy, Lokesh Kumar Sharma, Maryam Hadizadeh, Mohammad Aminul Islam, Wattana Viriyasitavat, Mayeen Uddin Khandaker
2022 Sustainability  
The privacy protection of medical and health big data is carried out under the supervision of machine learning during the data analysis stage.  ...  The use of anonymity technology and differential privacy in data collection can aid in the prevention of attacks based on background knowledge gleaned from data integration and fusion.  ...  Acknowledgments: This work was financially supported by the Malaysian Ministry of Higher Education through an FRGS grant: FRGS/1/2020/TK0/UM/02/33.  ... 
doi:10.3390/su14052500 doaj:4fb6a1d0daa04f3d9af6c283794b038e fatcat:osoiyq4hongfzkllidk26jcg7y

Perspectives on Clinical Informatics: Integrating Large-Scale Clinical, Genomic, and Health Information for Clinical Care

In Young Choi, Tae-Min Kim, Myung Shin Kim, Seong K. Mun, Yeun-Jun Chung
2013 Genomics & Informatics  
Since individual genome data are easily used to predict current and future health status, different safeguards to ensure confidentiality should be considered.  ...  The widespread adoption of EMR systems and the completion of the Human Genome Project developed the technologies for data acquisition, analysis, and visualization in two different domains.  ...  Acknowledgments This study was supported by a grant from the Ministry for Health, Welfare and Family Affairs (A120175).  ... 
doi:10.5808/gi.2013.11.4.186 pmid:24465229 pmcid:PMC3897845 fatcat:2tc3w43uarhxfjr7qkly5ld7pi

Clinical genomics, big data, and electronic medical records: reconciling patient rights with research when privacy and science collide

Jennifer Kulynych, Henry T. Greely
2017 Journal of Law and the Biosciences  
HIEs may be public or private, though many were initially funded and facilitated by the federal HITECH Act.  ...  the Privacy Rule. 65 Genomic data reside in an identifiability gray zone: while most researchers and policymakers have acknowledged that gene sequences could in theory be re-identified, linking the data  ...  Clinical genomics, big data, and electronic medical records r 131 not allow dissenting patients to impose the response biases and process burdens that an opt-out would entail. 133 We can even ask whether  ... 
doi:10.1093/jlb/lsw061 pmid:28852559 pmcid:PMC5570692 fatcat:nmpq6rfdsnfzxj3akvwcq26sje

Big Data and Ambulatory Care

Jane Hyatt Thorpe, Elizabeth Alexandra Gray
2015 The journal of ambulatory care management  
Critics argue that big data's transformative potential is inhibited by privacy requirements that restrict health information exchange.  ...  Big data is heralded as having the potential to revolutionize health care by making large amounts of data available to support care delivery, population health, and patient engagement.  ...  HIEs can also facilitate the creation and exchange of de-identified data.  ... 
doi:10.1097/jac.0000000000000059 pmid:25401945 pmcid:PMC4272234 fatcat:jobdwdhm4na5jn56ntaupx3rv4

Privacy in the Genomic Era

Muhammad Naveed, Erman Ayday, Ellen W. Clayton, Jacques Fellay, Carl A. Gunter, Jean-Pierre Hubaux, Bradley A. Malin, Xiaofeng Wang
2015 ACM Computing Surveys  
While the benefits of the genomics revolution are trumpeted by the biomedical community, the increased availability of such data has major implications for personal privacy; notably because the genome  ...  While the computer scientists have addressed data privacy for various data types, there has been less attention dedicated to genomic data.  ...  While the data disclosed by federal agencies is quite different from high-dimensional genomic data, it might be possible to adapt these practices to balance the benefits and harms caused by public sharing  ... 
doi:10.1145/2767007 pmid:26640318 pmcid:PMC4666540 fatcat:2s4nhu2d6vgrtiebdg5qeognbi

The law of genetic privacy: applications, implications, and limitations

2019 Journal of Law and the Biosciences  
This article examines the current landscape of genetic privacy to identify the roles that the law does or should play, with a focus on federal statutes and regulations, including the Health Insurance Portability  ...  generated, analysed, shared, and stored by diverse individuals and entities.  ...  Support for writing this article was provided by NIH grant R01HG008605, Law Seq: Building a Sound Legal Foundation for Translating Genomics into Clinical Application (Clayton, Lawrenz, and Wolf, PIs) and  ... 
doi:10.1093/jlb/lsz007 pmid:31666963 pmcid:PMC6813935 fatcat:xqivmzfpgja5jpjrvresdi7esa

Big healthcare data: preserving security and privacy

Karim Abouelmehdi, Abderrahim Beni-Hessane, Hayat Khaloufi
2018 Journal of Big Data  
Indeed, the concerns over the big healthcare data security and privacy are increased year-by-year.  ...  To ensure a secure and trustworthy big data environment, it is essential to identify the limitations of existing solutions and envision directions for future research.  ...  In data analysis module, correlations and association rules are determined to catch events.  ... 
doi:10.1186/s40537-017-0110-7 fatcat:jmon5tby4req7museetrt5zjjq
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