Infrastructure and Training to Bring Next-generation Sequence (NGS) Analysis Into Undergraduate 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技术与他们的学生进行研究调查。DNA学习中心的工作人员正在开发适当的生化和生物信息学材料，供一组代表区域和虚拟研讨会观众的教职员工使用、审查和修订。这些研讨会使80名教师能够开发良好的数据集和课程计划，这些教师是根据审查差异基因表达或转录组测序的易处理项目的建议而挑选出来的。数据分析使用了面向学生的DNA地铁绿线(www.dnasubway.org)和iPLANT Collaborative.org提供的研究级工具，这些工具使用了NSF极端科学和工程发现环境(www.xsede.org)的高性能计算资源。培训的目的是在第三年从面对面的研讨会过渡到在线网络研讨会和自我进度学习。对学生和教职员工影响的多方面评估正在开发中。智力上的好处：将下一代测序(NGS)技术和数据分析引入本科课堂，有可能改变全国的生物教学。这个项目特别启用了一种这样的方法，rna-seq，它使动态实验成为可能，以评估基因组的利用。其目标是使小型和/或主要是本科机构的教师-那些无法获得DNA测序仪、超级计算机或经验丰富的生物信息学家-在大学课堂上生成和/或使用NGS数据集，并邀请学生[成为]真核基因组探索的联合研究者。广泛的影响：正在关注包括来自各种机构的教师；大约25%的教师是从少数群体服务的机构招聘的。该提案的目的是进一步扩大基因组研究的平等主义性质。所有课程材料都是免费提供的；初级序列数据将在NCBI-SRA(国家生物技术信息中心-序列读取档案)和iPLANT数据存储中存档。正在设计一个专门的网站，以协议、操作视频、课程计划、研讨会和网络研讨会的形式提供教职员工支持。该项目由生物科学局和本科教育司教育和人力资源局联合资助，作为他们支持本科生物学教育愿景与变革的努力的一部分。

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.