REU Site: A Cyberlinked Program in Computational Biomolecular Structure & Design

REU 网站：计算生物分子结构的网络链接程序

• 批准号: 1659649
• 负责人: Jeffrey Gray
• 金额: $ 42.7万
• 依托单位: Johns Hopkins University
• 依托单位国家: 美国
• 项目类别: Continuing Grant
• 财政年份: 2017
• 资助国家: 美国
• 起止时间: 2017-04-15 至 2020-03-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=1659649&HistoricalAwards=false
• 关键词: REU; Site; Cyberlinked; Program; Computational

This REU Site award to Johns Hopkins University, located in Baltimore, MD, will support the training of 10 students for 10 weeks during the summers of 2017- 2019. The award is supported by the Divisions of Biological Infrastructure (BIO), Chemistry (MPS) and Engineering Education and Centers (ENG). Research is conducted in various labs of the Rosetta Commons (http://www.rosettacommons.org) located throughout the United States and abroad. The program consists of a 1-week boot camp where students learn computer coding and structural biology, 8 weeks of research in distributed labs, and a final week together at the Rosetta Conference. During the research period, students will complete an independent research project under the mentorship of a host lab, participate in weekly virtual journal clubs, prepare research proposals, and prepare a poster for presentation at the conference. Upon completion of the REU program, students will gain an understanding of how to investigate biological problems from a structural perspective; experience computational molecular design; acquire a solid foundation in research methodologies in biochemistry, biophysics, computational biology, and molecular engineering; gain skills to collaborate with other scientists and engineers in other laboratories globally; and gain a deeper appreciation for the contributions that improved technology in these areas can make to society.It is anticipated that a total of 30 students, primarily from schools with limited research opportunities, will be trained in the program. Recruiting and outreach efforts focus on women and underrepresented minorities, and the program will recruit at outreach conferences like the Grace Hopper Conference and the Annual Biomedical Research Conference for Minority Students. Students will have the opportunity to present and/or publish their work. A common web-based assessment tool used by all REU Site programs funded by the Division of Biological Infrastructure will be used to determine the effectiveness of the training program. Students will be tracked after the program to determine their career paths. Students will be asked to respond to an automatic email sent via the NSF reporting system. More information about the program is available by visiting http://www.rosettacommons.org/intern, or by contacting the PI (Dr. Jeffrey J. Gray at [e-mail]) or the program administrator (Ms. Camille Mathis at [e-mail]).

REU 授予位于马里兰州巴尔的摩的约翰·霍普金斯大学的该场地奖项将支持 10 名学生在 2017 年至 2019 年夏季进行为期 10 周的培训。该奖项得到了生物基础设施 (BIO)、化学 (MPS) 部门的支持）和工程教育和中心（ENG）。研究是在位于美国和国外的 Rosetta Commons (http://www.rosettacommons.org) 的各个实验室进行的。该计划包括为期 1 周的训练营，学生们学习计算机编码和结构生物学，在分布式实验室进行 8 周的研究，最后一周一起参加罗塞塔会议。在研究期间，学生将在主办实验室的指导下完成独立研究项目，参加每周的虚拟期刊俱乐部，准备研究计划，并准备在会议上展示的海报。完成 REU 课程后，学生将了解如何从结构角度研究生物学问题；体验计算分子设计；为生物化学、生物物理学、计算生物学和分子工程的研究方法学奠定坚实的基础；获得与全球其他实验室的其他科学家和工程师合作的技能；预计将有 30 名学生（主要来自研究机会有限的学校）接受该计划的培训。招募和外展工作重点关注女性和代表性不足的少数族裔，该计划将在格雷斯·霍珀会议和少数族裔学生年度生物医学研究会议等外展会议上进行招募。学生将有机会展示和/或发表他们的作品。 由生物基础设施司资助的所有 REU 站点计划所使用的通用网络评估工具将用于确定培训计划的有效性。项目结束后将对学生进行跟踪，以确定他们的职业道路。学生将被要求回复通过 NSF 报告系统发送的自动电子邮件。有关该计划的更多信息，请访问 http://www.rosettacommons.org/intern，或联系 PI（Jeffrey J. Gray 博士，[e-mail]）或计划管理员（Camille Mathis 女士， [e-mail]）。

项目成果

A cyber-linked undergraduate research experience in computational biomolecular structure prediction and design

计算生物分子结构预测和设计方面的网络连接本科生研究经验

• DOI: 10.1371/journal.pcbi.1005837
• 发表时间: 2017-12
• 期刊: PLOS Computational Biology
• 作者: Alford RF;Leaver-Fay A;Gonzales L;Dolan EL;Gray JJ
• 通讯作者: Gray JJ

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: 2019-02
• 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.

A Recurrent Mutation in Anaplastic Lymphoma Kinase with Distinct Neoepitope Conformations

具有不同新表位构象的间变性淋巴瘤激酶的反复突变

• DOI: 10.3389/fimmu.2018.00099
• 发表时间: 2018-01
• 期刊: Frontiers in Immunology
• 影响因子: 7.3
• 作者: Toor, Jugmohit S.;Rao, Arjun A.;McShan, Andrew C.;Yarmarkovich, Mark;Nerli, Santrupti;Yamaguchi, Karissa;Madejska, Ada A.;Nguyen, Son;Tripathi, Sarvind;Maris, John M.;et al
• 通讯作者: et al