Interoperable Software Platform for Reproducible Research and Clinical Translation of MRI

用于 MRI 可重复研究和临床转化的可互操作软件平台

• 批准号: 10265503
• 负责人: Michael Lustig
• 金额: $ 31.48万
• 依托单位: UNIVERSITY OF CALIFORNIA BERKELEY
• 依托单位国家: 美国
• 财政年份: 2019
• 资助国家: 美国
• 起止时间: 2019-09-21 至 2024-06-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/10265503
• 关键词: Address; Advanced Development; Algorithms; Ally; Architecture; Back; Binding; Clinical; Clinical Research; Cloud Computing; Code; Communities; Complement; Computer software; Data; Development; Documentation; Ecosystem; Educational Materials; Educational workshop; Environment; Europe; Fostering; Funding Opportunities; Goals; Growth; High Performance Computing; Image; Industry; Infrastructure; Institution; International; Ionizing radiation; Libraries; Linux; MRI Scans; Magnetic Resonance Imaging; Maintenance; Memory; Methods; Modality; Modernization; Monitor; Motivation; Movement; Neurosciences Research; Operating System; Performance; Polishes; Publishing; Pythons; Renaissance; Reproducibility; Research; Resources; Scanning; Schedule; Science; Site; Software Framework; Software Tools; Standardization; Techniques; Technology; Testing; Time; Training Activity; Translating; United States; Update; Vendor; Visual; Work; X-Ray Computed Tomography; base; bioimaging; clinical practice; clinical translation; cloud based; cluster computing; computational platform; computerized data processing; data repository; experience; file format; graphical user interface; image reconstruction; imaging modality; improved; innovation; interest; interoperability; man; neuroimaging; non-invasive imaging; open source; parallel computer; parity; pre-clinical research; program dissemination; quality assurance; reconstruction; research clinical testing; response; soft tissue; software infrastructure; tool; usability; web page; web portal; webinar

Project Abstract Motivation: This proposal, titled Interoperable Software Platform for Reproducible Research and Clinical Translation of MRI, is in response to the U24 funding opportunity RFA-EB-18-002, Resources for Technology Dissemination. Magnetic resonance imaging (MRI) is non-invasive, non-ionizing, and offers superb soft tissue contrast, but is traditionally limited by long scan times. Recently, advances in numerical image reconstruction and availability of powerful hardware platforms have led to new MRI scanning techniques with dramatic reductions in scan times. However, the associated computational sophistication has posed a large barrier to reproducibil- ity and clinical translation. This proposal addresses this fundamental issue by establishing best practices and infrastructure for reproducible research in MRI. Initial work toward this goal spanning six years has led to the development of the BART software toolbox for computational MRI. BART implements advanced MRI reconstruction algorithms in an extensible manner so that new technological advances can build off of the collective progress in the field. Supported computational back- ends including multi-CPU and multi-GPU architectures afford efficient use in a clinical translation environment. Project dissemination has been met with strong interest from the international MRI research community, having grown a user-base spanning over 50 academic and industry sites. Nonetheless, current limitations in project in- frastructure and support have hindered more widespread dissemination. Therefore, the major emphasis here is expanding development to improve usability, creation of written and audio-visual educational material, integration with other tools, cloud-based support, and software reliability. This will (1) provide new users common ground for starting new projects, (2) allow them to use their existing workflows with BART, (3) move to more accessible computation platforms, and (4) reliably translate their work into clinical practice. Approach: The project will proceed with four interrelated aims, supported by user training activities. Aim 1 will focus on adding comprehensive documentation and creating example-based tutorials. Aim 2 will expand interop- erability with software platforms and vendor tools used by the MRI community. Aim 3 will complete infrastructure and backends for cloud and parallel computing. Aim 4 will improve software reliability and quality assurance. The work will be disseminated through online material, webinars and workshops. Significance: This work will enable development, creation and reproducibility of modern state-of-the art MRI reconstruction methods that rely on highly specialized data processing approaches. MRI development will be streamlined as new methods build off of reliable infrastructure and existing work. Improved sustainability and reliability will enable rapid dissemination of new work into clinical evaluation and practice while significantly reducing the technical burden normally associated with clinical translation.

项目摘要 动机：这项名为可重复研究和临床的可互操作软件平台的建议 MRI的翻译，是对U24资助机会的回应RFA-EB-18-002，技术资源 传播。磁共振成像(MRI)是非侵入性的、非电离的，并提供极好的软组织。 对比度，但传统上受到较长扫描时间的限制。近年来，数字图像重建和图像重建技术的研究进展 强大的硬件平台的出现导致了新的MRI扫描技术的大幅减少 在扫描时间内。然而，相关的计算复杂性对复制造成了很大的障碍- 信息与临床翻译。该提案通过建立最佳实践和 磁共振成像可重复性研究的基础设施。 为了实现这一目标，经过六年的初步工作，BART软件工具箱已被开发出来 计算核磁共振。BART以可扩展的方式实施高级MRI重建算法，以便 新的技术进步可以建立在fi领域的集体进步的基础上。支持计算备份- 包括多中央处理器和多图形处理器架构的END在临床翻译环境中提供了有效的fi使用。 项目传播引起了国际核磁共振研究界的强烈兴趣， 扩大了覆盖50多个学术和行业站点的用户基础。尽管如此，目前项目中的限制- 框架和支持阻碍了更广泛的传播。因此，这里主要强调的是 扩大开发以提高可用性，创建书面和视听教育材料，整合 借助其他工具、基于云的支持和软件可靠性。这将(1)为新用户提供共同点 对于开始新项目，(2)允许他们通过BART使用他们现有的工作flOWS，(3)转移到更易访问的位置 计算平台，以及(4)可靠地将他们的工作转化为临床实践。 方法：该项目将以四个相互关联的目标进行，并辅之以用户培训活动。目标1将 重点是添加全面的文档和创建基于示例的教程。AIM 2将扩展互操作- MRI社区使用的软件平台和供应商工具的易用性。AIM 3将完成基础设施建设 以及云计算和并行计算的后端。目标4将提高软件可靠性和质量保证。这个 工作将通过在线材料、网络研讨会和讲习班进行传播。 SignifiCance：这项工作将使现代最先进的磁共振成像的开发、创造和重现性成为可能 重建方法依赖于高度专业化的数据处理方法。磁共振成像的开发将是 随着新方法建立在可靠的基础设施和现有工作的基础上，进行了精简。更好的可持续性和 可靠性将使新工作能够迅速传播到临床评估和实践中，同时显著地fi 减轻通常与临床翻译相关的技术负担。