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: 10022302
• 负责人: Michael Lustig
• 金额: $ 32.29万
• 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/10022302
• 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; Estrogen receptor positive; 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 warehouse; 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：该提案题为可重复研究和临床的互操作软件平台， MRI的翻译，是为了响应U24的资金机会RFA-EB-18-002，技术资源 传播。磁共振成像（MRI）是非侵入性，非电离，并提供极好的软组织 对比度，但传统上受到长扫描时间的限制。近年来，数字图像重建和重建技术取得了一些进展， 强大的硬件平台的可用性导致了新的MRI扫描技术， 在扫描时间。然而，相关的计算复杂性对再现性造成了很大的障碍， 临床和翻译。本提案通过确立最佳做法和 MRI可重复研究的基础设施。 为实现这一目标，最初的工作历时六年，已经开发了BART软件工具箱， 计算机核磁共振成像BART以可扩展的方式实现高级MRI重建算法， 新的技术进步可以建立在该领域的集体进步之上。支持的计算回- 包括多CPU和多GPU架构的终端在临床翻译环境中提供了有效的使用。 项目的传播受到了国际MRI研究界的强烈关注， 在50多个学术和行业网站上建立了用户群。尽管如此，目前在项目中的限制- 基础设施和支助阻碍了更广泛的传播。因此，这里的重点是 扩大开发，以提高可用性，编写书面和视听教材，整合 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 开始新的项目，（2）允许他们使用现有的工作流程与BART，（3）移动到更方便 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：该项目将在用户培训活动的支持下，实现四个相互关联的目标。目标1将 专注于添加全面的文档和创建基于示例的教程。目标2将扩大互操作性- MRI社区使用的软件平台和供应商工具的可删除性。目标3将完成基础设施 以及云计算和并行计算的后端。目标4将提高软件的可靠性和质量保证。的 将通过在线材料、网络研讨会和讲习班传播工作成果。 意义：这项工作将使现代最先进的MRI的开发，创造和再现成为可能。 重建方法依赖于高度专业化的数据处理方法。MRI的发展将是 随着新方法在可靠的基础设施和现有工作的基础上不断发展，提高可持续性， 可靠性将使新的工作迅速传播到临床评价和实践中， 减少了通常与临床翻译相关的技术负担。