EAGER: A New Model for Undergraduate Training: a Virtual Community of Researchers in Computational Biomolecular Structure & Design

EAGER：本科生培训新模式：计算生物分子结构研究人员的虚拟社区

• 批准号: 1541278
• 负责人: Jeffrey Gray
• 金额: $ 20.77万
• 依托单位: Johns Hopkins University
• 依托单位国家: 美国
• 项目类别: Standard Grant
• 财政年份: 2015
• 资助国家: 美国
• 起止时间: 2015-05-15 至 2017-04-30
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=1541278&HistoricalAwards=false
• 关键词: EAGER; New; Model; Undergraduate; Training

This EAGER award to Johns Hopkins University will test the efficacy of a distributed model of student training that uses virtual technologies for collaboration. The grant will support the training of 8 students for 10 weeks during the summers of 2015- 2016. Students will be trained in biomolecular structure and design, using the Rosetta software. Students attend a boot camp in Week 1 to learn how to use the software, including use of Python and C++ languages. Students then go to an assigned lab where they do research at the intersection of chemistry, biology, computer science and engineering. In Week 10, the students gather for presentation of their results and to exchange ideas. At the end of 10 weeks, students will have learned how research is conducted and will have presented the results of their work at a scientific conference. Upon completing the program, the students will have a greater understanding of research in the area of computational biomolecular design and structure prediction, and they will have learned the use of the Rosetta software. Assessment of the effectiveness of the training will be done thru the SALG URSSA survey instrument (available online at www.bioreu.org). Mentors come from the Rosetta Commons network, and students can choose from a variety of projects such as designing proteins that can produce fuels in microbes, writing algorithms for vaccine design, developing models of protein glycosylation in abnormal cells, and others. Students participate in virtual seminars/workshops scheduled every week, and they interact daily with students thru virtual technologies such as Skype, Google chat, etc. Training in ethics and the responsible conduct of research is included as well as exposure to various careers in STEM. Students will be tracked after the program thru an automatic email sent via the NSF reporting system. More information is available by visiting http://rosettacommons.org/intern, or by contacting the PI (Dr. Jeffrey Gray at [e-mail]) or the Program Manager (Gregg Nass at [e-mail]). This award is supported by the Division of Biological Infrastructure (DBI) in the Directorate for Biological Sciences (BIO), the Division of Advanced Cyberinfrastructure (ACI) in the Directorate for Computer and Information Science & Engineering (CISE), and the Division of Chemistry (CHE) in the Directorate for Mathematical and Physical Sciences (MPS).

这项授予约翰·霍普金斯大学的奖项将检验利用虚拟技术进行协作的分布式学生培训模式的有效性。这笔赠款将支持在2015-2016年夏季对8名学生进行为期10周的培训。学生将使用Rosetta软件接受生物分子结构和设计方面的培训。学生们在第一周参加一个新兵训练营，学习如何使用该软件，包括使用Python和C++语言。然后，学生们去一个指定的实验室，在那里他们在化学、生物、计算机科学和工程的交叉点进行研究。在第10周，学生们聚集在一起展示他们的结果并交流想法。在10周结束时，学生们将了解研究是如何进行的，并将在科学会议上展示他们的工作结果。完成课程后，学生们将对计算生物分子设计和结构预测领域的研究有更多的了解，他们将学习Rosetta软件的使用。将通过SALG Urssa调查工具(网址：www.bioreu.org)对培训效果进行评估。导师来自Rosetta Commons网络，学生可以从各种项目中进行选择，例如设计能够在微生物中产生燃料的蛋白质、为疫苗设计编写算法、开发异常细胞中蛋白质糖基化的模型等。学生每周参加预定的虚拟研讨会/讲习班，他们每天通过Skype、Google Chat等虚拟技术与学生互动。培训包括道德培训和负责任的研究行为，以及接触STEM的各种职业。项目结束后，学生将通过NSF报告系统发送的自动电子邮件进行跟踪。欲了解更多信息，请访问http://rosettacommons.org/intern，或联系PI(杰弗里·格雷博士，电子邮件：[e-mail])或项目经理(格雷格·纳斯，电子邮件：[e-mail])。该奖项由生物科学局(BIO)的生物基础设施部(DBI)、计算机和信息科学与工程局(CEISE)的高级网络基础设施部(ACI)以及数学和物理科学局(MPS)的化学部(CHE)支持。

项目成果

Massively parallel, computationally guided design of a proenzyme.

• DOI: 10.1073/pnas.2116097119
• 发表时间: 2022-04-12
• 期刊: Proceedings of the National Academy of Sciences of the United States of America
• 影响因子: 11.1

An Automated Data-Driven Pipeline for Improving Heterologous Enzyme Expression

用于改善异源酶表达的自动化数据驱动管道

• DOI: 10.1021/acssynbio.8b00486
• 发表时间: 2019
• 期刊: ACS Synthetic Biology
• 影响因子: 4.7
• 作者: Wrenbeck, Emily E.;Bedewitz, Matthew A.;Klesmith, Justin R.;Noshin, Syeda;Barry, Cornelius S.;Whitehead, Timothy A.
• 通讯作者: Whitehead, Timothy A.