From genomics to natural language processing: A protected environment for research computing in the health science

NIH S10设备提案：从基因组学到自然语言处理： 为健康科学中的研究计算提供受保护的环境。 健康科学研究人员经常被要求管理、挖掘和分析受限的患者数据 (受保护的健康信息，PHI)，以促进和推进他们的研究目标。他们经常是 在没有获得中央信息技术专门知识或资源的情况下这样做所需的便利 他们的研究目标是。这些研究人员常常被留在自己的设备上“解决”他们的研究 计算和数据需求面临挑战，原因是缺乏可用资源、来自 信息技术和/或缺乏对现有资源的了解。另一个挑战是“小”数据集-- 研究人员以前可以在办公室资源上处理的数据-已经演变并成长为 大数据领域通过技术进步的爆炸性增长和在各种领域的显著扩张 研究方向。例如：基因组研究、图像分析、模拟、自然 语言处理和EMR挖掘。因此，有必要制定一个框架，以便 安全可靠地管理和处理这些数据。 这项S10设备提案是为了取代大学的“受保护环境”(PE)原型 犹他州高性能计算中心(CHPC)和生物医学信息学系 六年前建成，自那以来一直在运营。PE由高性能计算和 足以管理、保护和分析的虚拟机(VM)组件和关联存储 HIPAA保护健康信息。这种环境一直非常成功，并已发展壮大 在范围上显著。CHPC在安全的犹他大学隔离了这个受保护的环境 市中心数据中心，并设置网络保护的逻辑分区，为研究小组提供 对各个数据集的特定访问权限。随着环境和技术的发展，CHPC补充说 额外的安全功能，例如用于进入和审计/监控的双因素身份验证。 不幸的是，原型已经达到了需求超过能力的地步，所有的 硬件已过时且已超出保修期。为了给虚拟机场组件的用户一个概念， 生物医学信息学核心(BMIC)RedCap(研究电子数据捕获)环境 数据收集在1,500个项目中拥有超过2,500名用户，支持美国国立卫生研究院在 犹他大学，包括支持超过25项有效的NIH R-01资助。此外，HIPAA 合规的保护环境是帮助通过最近的犹他大学的关键因素 HIPAA审计。“受保护的环境”也帮助犹他大学健康科学中心 和BMIC证明NCATS中心临床和翻译科学奖(1ULTR001067)。

NIH S10 equipment proposal: From genomics to natural language processing: A protected environment for research computing in the health sciences. Health sciences researchers are often required to manage, mine, and analyze restricted patient data (Protected Health Information, PHI) to facilitate and advance their research aims. They are often required to do this without access to central information technology expertise or resources to facilitate their research aims. These researchers are often left to their own devices to “solve” their research compute and data needs and are challenged due to lack of available resources, barriers from central IT, and/or lack of knowledge of available resources. A further challenge is that “small” data sets— data that researchers could formerly handle on office resources—have morphed and grown into the big data domain through the explosion of technical advances and significant expansion in various research directions. Examples include: genomics research, image analysis, simulation, natural language processing, and mining of EMRs. Therefore, the need exists to develop a framework for managing and processing this data securely and reliably. This S10 equipment proposal is to replace the “protected environment” (PE) prototype the University of Utah’s Center for High Performance Computing (CHPC) and Department of Biomedical Informatics built six years ago and has operated since. The PE consists of both high performance computing and virtual machine (VM) components and associated storage sufficient to manage, protect and analyze HIPAA protected health information. This environment has been very successful and has grown significantly in scope. CHPC isolated this protected environment in the secured University of Utah Downtown Data Center and setup a network protected logical partition that provided research groups specific access to individual data sets. As the environment and technology developed, CHPC added additional security features such as two-factor authentication for entry and audit/monitoring. Unfortunately, the prototype has reached the point where demand is surpassing capability and all the hardware is aged and off-warranty. To give an idea of users of the virtual machine farm component, the Biomedical Informatics Core (BMIC) REDCap (Research Electronic Data Capture) environment for data collection has over 2,500 users in 1,500 projects supporting over $25M in NIH funding at the University of Utah, including support for more than 25 active NIH R-01 grants. Moreover, the HIPAA compliant protected environment was a key factor that aided passing the recent University of Utah HIPAA audit. The “protected environment” also helped the University of Utah Health Sciences Center and the BMIC justify the NCATS Center Clinical and Translational Science award (1ULTR001067).