UCSC Graduate Program in Genome Sciences

摘要 UCSC基因组科学研究生培训计划结合了尖端的计算生物学 在多学科生物医学科学和工程环境中进行培训。在其他优势中，UC 圣克鲁斯是计算生物学、生物信息学、基因组技术和RNA生物学领域的世界领先者。 该计划的目标是准备学员先进的学术和行业的职业生涯在生物医学 基因组学我们的培训计划培养批判性思维技能，提供严格的计算机实践培训， 科学，统计和生物科学，并发展科学沟通技能。 拟议的方案将为6名受训人员提供支助，每人任期两年。我们的实习生 申请人池由博士生谁已经加入了UCSC的跨学科基因组学， 生物医学科学社区，并在他们的第一年完成了三个动手实验室轮换， 研究，其中至少有一个必须在GS程序教员的实验室进行。 基因组科学学员参加了几个创新的培训活动。每年，我们的学员将 组织和运行一个训练营，为每年即将到来的博士生谁是由部门接受队列。 生物分子工程学这个为期10天的活动由T32学员设计和实施， 教师的反馈和指导。训练营的核心是一个雄心勃勃的动手活动， 新来的格拉德生要对付以前的活动包括构建功能性DropSeq单细胞RNA 测序机（2017），以及香蕉蛞蝓的基因组测序和组装- UCSC的吉祥物 （2019年）。学员在26名教师的实验室接受培训，其中包括麦克阿瑟奖赢家， 美国国家科学院院士、诺贝尔奖获得者。学员的正式课程包括研究生课程- 生物伦理学、编程、实用基因组学、统计学和科学写作。这些课程 涵盖严谨性和可重复性以及负责任的研究行为的基本主题。与毕业生一起工作 咨询委员会和他们的教师导师，学员制定个人发展计划，其中可能涉及 进一步的课程，以解决具体的缺陷或特殊利益。与NHGRI DAP协调 计划，学员还将担任导师，本科生。 计划的成功将通过学员生产力的几个定量指标来评估，例如时间安排 出版物的数量和成功申请校外研究基金，以及职业成果 在授予博士学位后进行跟踪。这些指标将由基因组科学评估 执行委员会。 该计划是跨学科的，包括来自8个部门的26个项目教师。大多数学员和 大约一半的程序教师隶属于生物分子工程系，因为几乎所有 BME教师有基因组学为重点的研究计划。

ABSTRACT The UCSC Graduate Training Program in Genome Science combines cutting-edge computational biology training in a multidisciplinary biomedical science and engineering environment. Among other strengths, UC Santa Cruz is a world leader in computational biology, bioinformatics, genomic technologies and RNA biology. The goals of the program are to prepare trainees for advanced academic and industry careers in biomedical genomics. Our training program develops critical thinking skills, provides rigorous hands-on training in computer science, statistics, and biological sciences, and develops scientific communication skills. The proposed program will provide support for six trainees, each with a two-year appointment. Our trainee applicant pool consists of PhD students who have already joined UCSC’s interdisciplinary genomics and biomedical sciences community and completed three hands-on laboratory rotations during their first year of study, at least one of which must be conducted in the laboratory of a GS Program faculty member. Genome Science trainees participate in several innovative training activities. Each year, our trainees will organize and run a bootcamp for each year’s incoming PhD cohort of students who are accepted by the Dept. of Biomolecular Engineering. This 10-day activity is designed and implemented by the T32 trainees with feedback and guidance from faculty. The centerpiece of the bootcamp is an ambitious hands-on activity for the incoming grad cohort to tackle. Previous activities have included building a functional DropSeq single-cell RNA sequencing machine (2017), as well as genome sequencing and assembly of the banana slug – UCSC’s mascot (2019). Trainees receive training in labs of 26 faculty, including a winner of the MacArthur Award, members of the National Academy of Sciences, and a Nobel Laureate. Formal coursework for trainees includes graduate- level instruction in bioethics, programming, practical genomics, statistics, and scientific writing. These courses cover essential topics in rigor and reproducibility and responsible conduct of research. Working with the Graduate Advising Committee and their faculty mentors, trainees develop Individual Development Plans which may involve further coursework to address specific deficiencies or special interests. In coordination with the NHGRI DAP program, trainees will also serve as mentors to undergraduate students. Program success will be assessed via several quantitative metrics of trainee productivity, such as the timing and number of publications and success in applying for extramural research funds, as well as career outcomes that are tracked following the award of PhDs. These metrics will be assessed by the Genome Sciences Executive Committee. The program is interdisciplinary, including 26 program faculty from 8 departments. Most trainees and approximately half of program faculty are affiliated with the Biomolecular Engineering Department, as nearly all BME faculty have genomics-focused research programs.