Infrastructure and Training to Bring Next-generation Sequence (NGS) Analysis Into Undergraduate Education

将下一代序列 (NGS) 分析引入本科教育的基础设施和培训

• 批准号: 1323522
• 负责人: David Micklos
• 金额: $ 53.74万
• 依托单位: Cold Spring Harbor Laboratory
• 依托单位国家: 美国
• 项目类别: Standard Grant
• 财政年份: 2013
• 资助国家: 美国
• 起止时间: 2013-09-15 至 2017-08-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=1323522&HistoricalAwards=false
• 关键词: Infrastructure; Training; Bring; Next; generation

This project is developing a sustainable infrastructure and training program to assist undergraduate faculty in using RNA-Seq technology for research investigations with their students. The DNA Learning Center staff are developing appropriate biochemical and bioinformatics materials to be utilized, reviewed, and revised by a set of faculty who are representative of the audience for the regional and virtual workshops. These workshops enable 80 faculty, selected on the basis of proposals for tractable projects examining differential gene expression or transcriptome sequencing, to develop good data sets and curriculum plans. Data analysis utilizesboth the student-oriented Green Line of the DNA Subway (www.dnasubway.org) and the research-grade tools available at the iPlant Collaborative (www.iplantcollaborative.org), which use high performance computing resources of NSF's Extreme Science and Engineering Discovery Environment (www.xsede.org). The training is designed to transition from in-person workshops to online webinars and self-paced learning in year three. Development of a multi-faceted assessment of impacts on students and faculty is in process.Intellectual Merit: Bringing next-generation sequencing (NGS) technology and data analysis into the undergraduate classroom has the potential to transform biology teaching nation-wide. This project specifically enables one such approach, RNA-seq, which makes possible dynamic experiments to assess utilization of genomes. The goal is to enable faculty at small and/or primarily undergraduate institutions - those that do not have access to a DNA sequencer, a supercomputer, or an experienced bioinformatician - to generate and/or utilize NGS datasets in the college classroom and to invite students [to be] co-investigators in the exploration of eukaryotic genomes.Broader Impact: Attention is being paid to including faculty from a variety of institutions; about 25% of the faculty are being recruited from minority-serving institutions. The aim of the proposal is to further extend the egalitarian nature of genome research. All curriculum materials are being made freely available; primary sequence data will be archived in the NCBI-SRA (National Center for Biotechnology Information-Sequence Read Archive) and in the iPlant Data Store. A dedicated website is being designed to include faculty support in the form of protocols, how-to videos, lesson plans, workshops and webinars. This project is being funded jointly by the Directorate for Biological Sciences and the Directorate of Education and Human Resources, Division of Undergraduate Education as part of their efforts to support Vision and Change in Undergraduate Biology Education.

该项目正在开发一个可持续的基础设施和培训计划，以帮助本科教师使用RNA-Seq技术与学生进行研究调查。DNA学习中心的工作人员正在开发适当的生物化学和生物信息学材料，以供代表区域和虚拟研讨会观众的一组教师使用，审查和修订。这些研讨会使80名教师，根据研究差异基因表达或转录组测序的易处理项目的建议选择，以开发良好的数据集和课程计划。数据分析利用面向学生的DNA地铁（www.example.com）绿色线和iPlant Collaborative（www.iplantcollaborative.org）提供的研究级工具，这些工具使用NSF极端科学和工程发现环境（www.xsede.org）的高性能计算资源。www.dnasubway.org该培训旨在在第三年从面对面的研讨会过渡到在线网络研讨会和自主节奏的学习。智力优势：将下一代测序（NGS）技术和数据分析引入本科生课堂有可能改变全国的生物学教学。该项目特别支持这样一种方法，即RNA-seq，它可以进行动态实验来评估基因组的利用率。其目标是使小型和/或主要是本科院校的教师--那些无法获得DNA测序仪、超级计算机或有经验的生物信息学家的院校--能够在大学课堂上生成和/或利用NGS数据集，并邀请学生[成为]探索真核基因组的共同研究者。大约25%的教员是从为少数民族服务的机构招聘的。该提案的目的是进一步扩大基因组研究的平等性质。所有课程材料都是免费提供的;主要序列数据将存档在NCBI-SRA（国家生物技术信息中心-序列读取存档）和iPlant数据存储中。正在设计一个专门的网站，以包括协议，如何视频，课程计划，研讨会和网络研讨会的形式教师支持。 该项目由生物科学理事会和本科教育部教育和人力资源理事会共同资助，作为其支持本科生物学教育愿景和变革的努力的一部分。