BIOS 200: Foundations in Experimental Biology
This course is divided into three 3-week cycles and is focused on the broad themes of Evolution, Energy and Information. During each cycle, students work in small teams and will be coached by faculty to develop an original research project and compose a brief written proposal explaining the research. Skills emphasized include: 1) reading for breadth and depth; 2) developing compelling, creative arguments; 3) communicating with the spoken and written word; 4) working in teams. Peer assessment and workshops; substantial face-to-face discussion with faculty drawn from across the Biosciences programs.
Terms: Aut
| Units: 6
BIOS 201: Next Generation Sequencing and Applications
Usher in the golden age of biological discovery with next generation sequencing (NGS) through its wide spectrum of applications. Modules include general introduction of Next Generation Sequencing (NGS) technologies, applications of these sequencing technologies, caveats and comparisons with previous approaches, analysis and interpretation of sequencing data, principles of tools and resources and practical ways to utilize them, and features and pitfalls. Prerequisite: background in molecular biology.
Terms: Spr
| Units: 2
BIOS 204: Practical Tutorial on the Modeling of Signal Transduction Motifs
Basics of ordinary differential equation modeling of signal transduction motifs, small circuits of regulatory proteins and genes that serve as building blocks of complex regulatory circuits. Morning session covers numerical modeling experiments. Afternoon session explores theory underpinning that day's modeling session. Modeling done using Mathematica, Standard Edition provided to enrolled students.
Terms: Spr
| Units: 2
Instructors:
Ferrell, J. (PI)
BIOS 205: Introductory Data Analysis in R for Biomedical Students
Topics include: basics of R (widely used, open-source programming and data analysis environment) programming language and data structures, reading/writing files, graphics tools for figure generation, basic statistical and regression operations, survey of relevant R library packages. Interactive format combining lectures and computer lab. For course and enrollment information, see
http://bios205.stanford.edu.
Terms: Aut, Win, Spr
| Units: 1
Instructors:
Bagley, S. (PI)
BIOS 208: Computational Macromolecule Structure Modeling
Concepts, workflow, and methodology of protein structure modeling presented through short lectures followed by hands-on exercises with the Rosetta software package. Several problem types demonstrate how to formulate and test well-defined hypotheses, in addition to the design and engineering of structure, function, and interactions.
Terms: Spr
| Units: 2
BIOS 211: Histology for Biosciences
Fundamentals of tissue organization as seen by light microscopy. Includes: epithelium, connective tissue, muscle, bone, cartilage, blood cells, nerve, and quick overview of several major organs. Each session has interactive 30 minutennpresentation followed by 1.5 hours viewing glass histology slides using individual microscopes and a multi-headed microscope. Slide sessions interspersed with interactive exercises to stimulate discussions. Supporting materials include select readings from histology atlas, electron micrographs, and virtual (whole-slide) images provided online.
Terms: Spr
| Units: 1
Instructors:
Connolly, A. (PI)
BIOS 213: Scientific Illustration and Animation
Techniques of presenting big picture ideas and detailed experiments as simple cartoons. Mixed lecture/lab course culminates with students producing figures and animations for an introduction/conclusion of a research presentation. Covers basic design principles to help produce figures useful for broad and focused audiences. Includes static illustrations, Flash style, and stop motion animation.
Terms: Spr
| Units: 1
Instructors:
Schneider, D. (PI)
BIOS 218: Molecular basis of membrane traffic
Transport of proteins through the secretory and endocytic pathways is essential for life; dysregulation causes disease and pathogens hijack these pathways to their best advantage. 5 international experts present didactic lectures and engage with students. Topics include: history of genetic and biochemical experiments to identify key components; reconstitution approaches; coated vesicle formation and cargo selection; control of membrane traffic by Rab GTPases; siRNA screens; high throughput microscopy analysis and systems biology approaches. Students devise and present research proposals based on the research of the guest speakers.
Terms: Win
| Units: 2
Instructors:
Pfeffer, S. (PI)
BIOS 221: Modern Statistics for Modern Biology (STATS 366)
Application based course in nonparametric statistics. Modern toolbox of visualization and statistical methods for the analysis of data, examples drawn from immunology, microbiology, cancer research and ecology. Methods covered include multivariate methods (PCA and extensions), sparse representations (trees, networks, contingency tables) as well as nonparametric testing (Bootstrap, permutation and Monte Carlo methods). Hands on, use R and cover many Bioconductor packages. Prerequisite: Minimal familiarity with computers. Instructor consent.
Terms: Sum
| Units: 3
Instructors:
Holmes, S. (PI)
BIOS 222: Authentic Courage for Constructive Change: Skills and Practice for Leadership
Explores concepts in decision making and constructive conflict as a mechanism for desired change via purposeful actions. Students assess personal conflict comfort zones and use case studies and class activities to develop skills with authenticity, active and intentional decision making, and other related topics.
Terms: Spr
| Units: 1
Instructors:
Thadaney Israni, S. (PI)
;
Herschlag, D. (SI)
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