sfkit: a web-based toolkit for secure and federated genomic analysis.

sfkit: a web-based toolkit for secure and federated genomic analysis.
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DOI:
10.1093/nar/gkad464
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发表时间:
2023-07-05
影响因子:
14.9
通讯作者:
--
中科院分区:
生物学2区
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--
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基因组学的进步越来越依赖于分析大量和多样化的基因组数据集的能力,由于隐私问题,这些数据集通常很难收集。最近的工作表明,联合分析多方持有的数据集是可能的,同时使用加密技术可证明地保护每一方数据集的隐私。然而,由于所需的设置和各方之间的协调十分复杂,这些工具在实践中的使用一直具有挑战性。我们提出了sfkit,一个安全的和联合的工具包,用于协作基因组研究,以允许合作者组轻松地执行其数据集的联合分析,而不损害隐私。sfkit由一个web服务器和一个命令行界面组成,它们共同支持一系列用例,包括自动配置和用户提供的计算环境。sfkit为全基因组关联研究(GWAS)和主成分分析(PCA)的基本任务提供协作工作流程。我们设想sfkit成为一个一站式服务器,为广泛的基因组分析提供安全的协作工具。sfkit是开放源代码的,可在https://sfkit.org上获得。
Advances in genomics are increasingly depending upon the ability to analyze large and diverse genomic data collections, which are often difficult to amass due to privacy concerns. Recent works have shown that it is possible to jointly analyze datasets held by multiple parties, while provably preserving the privacy of each party’s dataset using cryptographic techniques. However, these tools have been challenging to use in practice due to the complexities of the required setup and coordination among the parties. We present sfkit, a secure and federated toolkit for collaborative genomic studies, to allow groups of collaborators to easily perform joint analyses of their datasets without compromising privacy. sfkit consists of a web server and a command-line interface, which together support a range of use cases including both auto-configured and user-supplied computational environments. sfkit provides collaborative workflows for the essential tasks of genome-wide association study (GWAS) and principal component analysis (PCA). We envision sfkit becoming a one-stop server for secure collaborative tools for a broad range of genomic analyses. sfkit is open-source and available at: https://sfkit.org.
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影响因子: 16.6
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Froelicher D;Troncoso-Pastoriza JR;Raisaro JL;Cuendet MA;Sousa JS;Cho H;Berger B;Fellay J;Hubaux JP
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