A hands-on, integrative next-generation sequencing course: design, experiment, and analysis

动手实践的综合下一代测序课程：设计、实验和分析

• 批准号: 9356510
• 负责人: Cliburn C Chan
• 金额: $ 16.1万
• 依托单位: DUKE UNIVERSITY
• 依托单位国家: 美国
• 财政年份: 2016
• 资助国家: 美国
• 起止时间: 2016-09-22 至 2019-06-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/9356510
• 关键词: Adherence; Automation; Big Data; Bioinformatics; Biological; Biology; Cloud Computing; Code; Computer software; Country; Data; Data Analyses; Discipline; Educational process of instructing; Educational workshop; Experimental Designs; Faculty; Foundational Skills; Foundations; Generations; Genomics; Goals; Immersion Investigative Technique; Informatics; Interdisciplinary Study; Knowledge; Laboratories; Lead; Learning; Libraries; Mechanics; Medical Informatics; Medical Students; Mentors; Methods; Modeling; Noise; Participant; Postdoctoral Fellow; Process; Protocols documentation; Recruitment Activity; Reporting; Reproducibility; Research; Research Personnel; Science; Scientist; Students; Techniques; Technology; Testing; Training; Walking; Work; biomedical scientist; career; cluster computing; collaborative environment; computing resources; design; experience; experimental study; faculty mentor; graduate student; insight; instructor; lectures; literate; multidisciplinary; next generation; next generation sequencing; pedagogy; programs; risk minimization; sequencing platform; skills; sound; statistics; tool; undergraduate student

PROJECT SUMMARY/ABSTRACT The proposed six-week summer course will provide knowledge, practical skills and experience needed to train the next generation of biomedical researcher in planning, conducting and analyzing inter-disciplinary genomics experiments. Participants will be recruited nationally from advanced undergraduates, early graduate students and postdoctoral fellows from both biological and quantitative disciplines. In addition to learning genomics, statistics, informatics and programming from didactic lectures, participants will also gain invaluable experience working in small diverse groups, mentored by faculty instructors with expertise in both the biological and quantitative sciences. The workshop emphasizes recall and self-testing in gaining these skills in the hands-on computing and wet lab sessions, following pedagogical best practices of interleaved learning, spacing and low- stakes testing for learning. The workshop also emphasizes best practices in reproducible analysis, including literate programming, use of version control and automation via scripting from raw data to final report. Finally, students will be introduced to platforms for Big Data, including the use of cloud computing platforms and libraries for distributed computing such as Spark.

项目总结/摘要 拟议的为期六周的暑期课程将提供培训所需的知识、实践技能和经验。 下一代生物医学研究人员在规划，进行和分析跨学科基因组学 实验参与者将在全国范围内从高年级本科生，早期研究生中招募 以及来自生物学和定量学科的博士后研究员。除了学习基因组学， 从教学讲座的统计学，信息学和编程，与会者还将获得宝贵的经验 在不同的小组中工作，由具有生物学和生物学专业知识的教师指导， 定量科学该研讨会强调回忆和自我测试，以获得这些技能的动手 计算和湿实验室会议，以下交错学习，间距和低- 为了学习而进行的测试。研讨会还强调了可重复分析的最佳实践，包括 识字编程，使用版本控制和自动化通过脚本从原始数据到最终报告。最后， 学生将被介绍到大数据平台，包括云计算平台和图书馆的使用 像Spark这样的分布式计算。