CC* Networking Infrastructure: A Science DMZ For Quantitative Biology and Precision Agriculture

CC* 网络基础设施：定量生物学和精准农业的科学 DMZ

• 批准号: 2018432
• 负责人: Brian O'Shea
• 金额: $ 48.31万
• 依托单位: Michigan State University
• 依托单位国家: 美国
• 项目类别: Standard Grant
• 财政年份: 2020
• 资助国家: 美国
• 起止时间: 2020-07-01 至 2022-06-30
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=2018432&HistoricalAwards=false
• 关键词: CC; Networking; Infrastructure; Science; DMZ

Moore’s Law has ushered in a scientific data revolution. This is particularly acute in the life sciences, where the devices used to collect data and the theoretical tools used to generate models have benefited tremendously from the advent of inexpensive digital sensors and general-purpose graphics processing units, which have led to an explosive increase in the volume of high-quality data. Sharing large amounts of this data for analysis by other researchers will result in tremendous benefits to the scientific community.This project creates a Science DMZ at Michigan State University, which will facilitate MSU researchers’ ability to share huge volumes of data with the external research community at very high bandwidth. The project supports the networking hardware and software necessary to implement up to 100Gbps network connections used for sharing data already stored at MSU’s High Performance Computing System and on the NSF-funded MI-OSIRIS file system. The project uses data provided by four research groups on campus as a testbed, making cryo-electron microscopy images, hyperspectral imaging of crops using drones, three-dimensional volumetric images of plants generated via X-ray computed tomography, and a databank of biomolecular simulation data available to other researchers and the public. This project enhances the impact of MSU scientists and leverages prior NSF scientific and cyberinfrastructure investments. In addition, it involves the participation of students in the deployment and usage of the science DMZ.This award reflects NSF's statutory mission and has been deemed worthy of support through evaluation using the Foundation's intellectual merit and broader impacts review criteria.

摩尔定律引发了一场科学数据革命，这在生命科学领域尤其严重，用于收集数据的设备和用于生成模型的理论工具极大地受益于廉价数字传感器和通用图形处理的出现。单位，这导致高质量数据量的爆炸性增长，共享大量数据供其他研究人员分析将为科学界带来巨大利益。该项目在密歇根州立大学创建了一个科学 DMZ，这将有利于密歇根州立大学的研究人员能够以非常高的带宽与外部研究社区共享大量数据 该项目支持实现高达 100Gbps 的网络连接所需的网络硬件和软件，该网络连接用于共享已存储在 MSU 高性能计算系统和 NSF 上的数据。该项目使用校园内四个研究小组提供的数据作为测试平台，制作冷冻电子显微镜图像、使用无人机对农作物进行高光谱成像、生成植物的三维体积图像。通过 X 射线计算机断层扫描以及可供其他研究人员和公众使用的生物分子模拟数据数据库，该项目增强了密歇根州立大学科学家的影响力，并利用了之前的 NSF 科学和网络基础设施投资。此外，它还涉及学生的参与。科学 DMZ 的部署和使用。该奖项反映了 NSF 的法定使命，并通过使用基金会的智力价值和更广泛的影响审查标准进行评估，被认为值得支持。

项目成果

Measuring hidden phenotype: quantifying the shape of barley seeds using the Euler characteristic transform

测量隐藏表型：使用欧拉特征变换量化大麦种子的形状

• DOI: 10.1093/insilicoplants/diab033
• 发表时间: 2022-01
• 期刊: in silico Plants
• 影响因子: 3.1
• 作者: Amézquita, Erik J;Quigley, Michelle Y;Ophelders, Tim;Landis, Jacob B;Koenig, Daniel;Munch, Elizabeth;Chitwood, Daniel H
• 通讯作者: Chitwood, Daniel H

The genetics and physiology of seed dormancy, a crucial trait in common bean domestication

种子休眠的遗传学和生理学，菜豆驯化的关键性状

• DOI: 10.1186/s12870-021-02837-6
• 发表时间: 2021-01-22
• 期刊: BMC Plant Biology
• 影响因子: 5.3
• 作者: Soltani A;Walter KA;Wiersma AT;Santiago JP;Quiqley M;Chitwood D;Porch TG;Miklas P;McClean PE;Osorno JM;Lowry DB
• 通讯作者: Lowry DB