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1 - 10 of 51 results for: BIOS

BIOS 200: Foundations in Experimental Biology

This course is divided into two 3-week cycles. During the first cycle, students will be developing a 2-page original research proposal, which may be used for NSF or other fellowship applications. In the second cycle, students will work in small teams and will be mentored by faculty to develop an original research project for oral presentation. 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. Important features of the course include peer assessment, interactive joint classes, and substantial face-to-face discussion with faculty drawn from across the Biosciences programs. Shortened autumn quarter class; class meets during weeks 1 through 8 of the quarter.
Terms: Aut | Units: 5 | Grading: Satisfactory/No Credit

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: Win | Units: 2 | Grading: Medical Option (Med-Ltr-CR/NC)

BIOS 202: Hippocampal Field Potentials, an Introduction to CNS in Vitro Electrophysiology

Enrollment limited to graduate students in the School of Medicine; undergraduates may enroll with instructor consent. Introduces students to theory and practice of in vitro CNS electrophysiology. Lectures cover basic electrical and electrode theory, hippocampal anatomy, interpretation of these potentials, common pitfalls and misinterpretations, design of experiments using field potentials and other related topics. Practicum is hands on training in obtaining, recording and interpreting field potentials from in vitro hippocampal slices. Students develop skills in data collection, analysis and evaluation, art and design of electrophysiological studies of the brain.
Terms: not given this year | Units: 1-3 | Grading: Letter or Credit/No Credit

BIOS 203: Introduction to Atomistic Simulations for Biochemical Applications

Theory and application of atomistic simulations needed to model and understand systems of biological relevance (proteins, DNA, small molecule therapeutic drug properties) for beginners. Topics: molecular interactions and classical force fields, first principles energy approaches, molecular dynamics, rare event and transition-state finding techniques, protein folding, and solvation methods. Hands-on tutorials based on key topics in biochemical simulation that use variety of state-of-the-art software packages on both standard and new, advanced graphical processing unit hardware for simulation and analysis ofnnbiochemical properties. Prerequisites: Some knowledge of quantum mechanics, biochemistry, and shell scripting (BASH or python) preferred.
Terms: not given this year | Units: 3 | Grading: Letter or Credit/No Credit

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: 3 | Grading: Medical Satisfactory/No Credit
Instructors: Ferrell, J. (PI)

BIOS 205: Introduction to R

Autumn quarter enrollment limited to ADVANCE students; instructor consent required for enrollment. 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 | Grading: Medical Satisfactory/No Credit
Instructors: Bagley, S. (PI)

BIOS 206: Stem Cells and Regeneration: Transitioning from Basic Research to Clinical Therapies

Presents emerging therapies based on stem cell by the scientists leading these pioneering efforts, including academic and industry-based groups. Provides hands-on instruction in laboratory methods valuable in development of stem cell therapies.
Terms: not given this year | Units: 1-2 | Grading: Medical Option (Med-Ltr-CR/NC)

BIOS 207: Interdisciplinary Approaches to Biochemistry: Single Molecule Biophysics to Clinical Outcomes

Interdisciplinary analysis from basic biochemistry and biophysics to clinical outcomes of disease states and potential therapeutic interventions. Focus on cardiac system. Single molecule biophysics and classical enzyme kinetics and use of induced pluripotent stem (iPS) cells and single cell studies lay foundation for discussions of effects of cardiomyopathy mutations on heart function. Analytical approaches discussed include genetic analysis, reconstitution of functional assemblies, x-ray diffraction, 3D reconstruction of electron microscope images, spectroscopic methods, computational approaches, single molecule biophysics, use of induced pluripotent stem cells in research.
Terms: not given this year | Units: 1 | Grading: Medical Satisfactory/No Credit

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: not given this year | Units: 2 | Grading: Medical Option (Med-Ltr-CR/NC)

BIOS 209: Practical Protein NMR Structure Determination

Work toward solving a high-resolution 3D structure from unprocessed NMR data acquired on a small well-characterized protein. Short lectures followed by hands-on computer exercises demonstrate best practices for data processing, spectra interpretation, and structure calculation with attention to troubleshooting and validation methods. Students should be familiar with fundamental concepts of protein structure and NMR spectroscopy and comfortable with the command-line environment. Prerequisite: SBIO242/ BIOPHYS 242 strongly recommended, but not required.
Terms: not given this year | Units: 2 | Grading: Letter or Credit/No Credit
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