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The course will focus on computational approaches to ensure that all data, code, and analyses can be captured in a reproducible workflow, to be confirmed and replicated by you in the future, by other members of your team, and by reviewers and other researchers. We will cover how to satisfy FAIR principles, version control, how to create a git repository, utilize Github and how to create a reproducible dataset. Prerequisites: Basic knowledge of R. Recommended (not required): EPI 202 or 261/262, STATS 60, or MS&E 125.

Focus on designing and analyzing effective proteomics experiments using mass spectrometry and critically evaluating published mass spectrometry-based studies and datasets. Introduces students to the instrumentation, experimental strategies, and computational methods used for identifying and quantifying proteins and protein post-translational modifications using mass spectrometry. Topics include comparative evaluation of mass spectrometer instrument configurations, tandem mass spectrum interpretation, relative and absolute quantitation, and proteome-scale data set analysis. Laboratory time will focus on sample preparation methods, real-time data acquisition, and data analysis software and techniques. Note: Students should sign up for the morning lecture and one of two lab sections in the afternoon.

Everyone has fears presenting in front of a crowd. But with practice, self-awareness and preparation you can put those fears aside and make a real impact with your message. Utilizing professional theater practices and tricks, this course is a deep dive into what makes a presentation work. Get a chance to explore your own presentation style and address your questions and challenges with public speaking in a safe and fun space. The course is taught by Michileen Marie Oberst, a Professional director and actor in the Bay Area whose background includes teaching at the Tony Award winning TheatreWorks Silicon Valley.

This mini-course is designed to equip graduate students and postdocs with essential skills for ensuring reproducibility in computational research. Through practical exercises and interactive sessions, participants will learn best practices, tools, and techniques for doing open and reproducible research. Topics covered include version control, containerization, data management, workflows, and documentation strategies. This course empowers students to overcome challenges associated with reproducibility, fostering rigorous scientific inquiry, and enhancing the credibility and impact of their computational work, while also exploring the primary causes and consequences of irreproducibility in research. Participants will gain valuable insights and practical experience in achieving computational reproducibility across various domains, including biology. Prerequisites: Basic familiarity with programming (e.g., Python, R); Basic knowledge of Unix/Linux Bash

Tailored lectures and case studies lead to a practical final project. Leaders from local firms and companies will help you gain insight into the biotechnology industry, the skills and experiences necessary to succeed, and the various roles and responsibilities within the industry. Coursework is divided into 4 sections: Introductory Material: The first segment consists of two lectures and introduces the biotechnology company life cycle along with introductory concepts in finance. Venture Capital and Private Equity: The second segment consists of three lectures devoted to venture capital finance and private equity where students will learn the basic mechanics of raising capital. nPublic Finance: The third segment consists of the interpretation of financial statements, construction of company forecasts, and evaluating business value from such projections. Final Project: The final lecture will conclude with student presentations on their final projects.

Chemical transformations are central to biology and function, and chemical methods provide some of the most powerful tools for everyday experimental biology. Yet, most practitioners of biology have learned chemistry through memorization and do not use chemical principles or intuition in their research, even though chemistry underlies most processes and experiments carried out in biology and by biologists. Fortunately, a basic understanding and working knowledge can be gained in a short time, through a small set of simple concepts and limited number of memorized facts. These concepts and facts will be introduced and then mastered through use in highly interactive, in-class problems and evaluation of selected literature. At the end of the three-week course students will have an ability to understand the chemistry underlying cellular processes and to better discuss and evaluate chemical tools and approaches. Prerequisites: High school or college introductory chemistry recommended but not required.Course runs 11/15-12/10 MWF 10-11:45am

Design a fulfilling and impactful vision for your career and life as a whole. The primary purpose of the class is to develop a perspective and align your attitudes, actions and experiences with your values, priorities, and your own ultimate definition of victory for living an extraordinary life. A practical guide for career development, this class will provide training through conversations, self-analysis, and writing exercises on career direction, communication, and the development and leveraging of relationships skills that are central to success in any career as a scientist. We will examine what it means (and what it takes) to succeed in a variety of life domains, including money, health, career, relationships, and physical fitness as well as personal growth. We will dig into the darker side of being human, exploring phenomena like negative character traits, fears, hauntings, and regrets. Ultimately, we want you to gain insight into who you are, what you want most, and how you might inadvertently and unwittingly get in your own way. We want you to learn how to confront the most vexing issues in your life, learn from them, and eventually transform your relationship to them. Course Structure: The course consists of ten intensive, flipped-classroom sessions designed to help you develop the skills and knowledge--and, more importantly, the insight and capacity--to be more strategic and effective in how you lead your life. It requires a willingness to be introspective and to consider personal feedback and constructive confrontation. Enrollment is capped at 30 learners, all of whom will be provided subscriptions to Inner.U which will serve as an electronic textbook and supported by a team of three faculty facilitators.

This mini course will explore structural variants (SVs) in genomes, an emerging topic with applications to many biological sub-disciplines. New sequencing technologies and computational techniques are unlocking this formerly hidden class of genomic diversity and revealing the importance of these variants in both disease and adaptation. In a series of lectures and workshops, the course will cover a brief history of the field, distribution of SVs in genomes, relevance of SVs to both disease and adaptation, recent methods to identify and resolve SVs, and future outlooks and approaches. Prerequisites: some background with genetics. Familiarity with a Unix/Linux environment would be helpful.