Print Settings
 

BIOPHYS 196: INTERACTIVE MEDIA AND GAMES (BIOE 196)

Interactive media and games increasingly pervade and shape our society. In addition to their dominant roles in entertainment, video games play growing roles in education, arts, and science. This seminar series brings together a diverse set of experts to provide interdisciplinary perspectives on these media regarding their history, technologies, scholarly research, industry, artistic value, and potential future.
Terms: Aut, Win, Spr | Units: 1 | Repeatable 3 times (up to 3 units total)
Instructors: ; Riedel-Kruse, I. (PI)

BIOPHYS 227: Functional MRI Methods (RAD 227)

Basics of functional magnetic resonance neuroimaging, including data acquisition, analysis, and experimental design. Journal club sections. Cognitive neuroscience and clinical applications. Prerequisites: basic physics, mathematics; neuroscience recommended.
Terms: Win | Units: 3
Instructors: ; Glover, G. (PI)

BIOPHYS 242: Methods in Molecular Biophysics (SBIO 242)

Experimental methods in molecular biophysics from theoretical and practical standpoints. Emphasis is on X-ray diffraction, nuclear magnetic resonance, and fluorescence spectcroscopy. Prerequisite: physical chemistry or consent of instructor.
Terms: Win | Units: 3

BIOPHYS 297: Bio-Inorganic Chemistry (CHEM 297)

Overview of metal sites in biology. Metalloproteins as elaborated inorganic complexes, their basic coordination chemistry and bonding, unique features of the protein ligand, and the physical methods used to study active sites. Active site structures are correlated with function. Prerequisites: 153 and 173, or equivalents.
Terms: Win | Units: 3
Instructors: ; Solomon, E. (PI)

BIOPHYS 300: Graduate Research

Investigations sponsored by individual faculty members. Prerequisite: consent of instructor.
Terms: Aut, Win, Spr, Sum | Units: 1-18 | Repeatable for credit
Instructors: ; Altman, R. (PI); Barron, A. (PI); Block, S. (PI); Boxer, S. (PI); Brandman, O. (PI); Brunger, A. (PI); Bryant, Z. (PI); Butte, M. (PI); Cegelski, L. (PI); Chaudhuri, O. (PI); Chen, X. (PI); Chu, G. (PI); Chu, S. (PI); Cochran, J. (PI); Cui, B. (PI); Das, R. (PI); Davis, M. (PI); Doniach, S. (PI); Dror, R. (PI); Dunn, A. (PI); Feng, L. (PI); Ferrell, J. (PI); Fisher, D. (PI); Fordyce, P. (PI); Frydman, J. (PI); Garcia, C. (PI); Glover, G. (PI); Goodman, M. (PI); Greenleaf, W. (PI); Hanawalt, P. (PI); Harbury, P. (PI); Herschlag, D. (PI); Hodgson, K. (PI); Huang, K. (PI); Jardetzky, T. (PI); Khosla, C. (PI); Kim, P. (PI); Kobilka, B. (PI); Kool, E. (PI); Kopito, R. (PI); Kornberg, R. (PI); Levin, C. (PI); Levitt, M. (PI); Lewis, R. (PI); Li, J. (PI); Li, L. (PI); Liphardt, J. (PI); Long, S. (PI); Maduke, M. (PI); Meyer, T. (PI); Moerner, W. (PI); Pande, V. (PI); Pelc, N. (PI); Prakash, M. (PI); Pruitt, B. (PI); Puglisi, J. (PI); Quake, S. (PI); Rao, J. (PI); Riedel-Kruse, I. (PI); Salzman, J. (PI); Schnitzer, M. (PI); Skotheim, J. (PI); Smith, S. (PI); Solomon, E. (PI); Spakowitz, A. (PI); Spudich, J. (PI); Tang, S. (PI); Teruel, M. (PI); Theriot, J. (PI); Wandless, T. (PI); Wang, B. (PI); Weis, W. (PI); Zare, R. (PI); de la Zerda, A. (PI); Derner, T. (GP); Frank, D. (GP); Geiselhart, K. (GP); Jones, M. (GP)

BIOPHYS 311: Biophysics of Multi-cellular Systems and Amorphous Computing (BIOE 211, BIOE 311, DBIO 211)

Provides an interdisciplinary perspective on the design, emergent behavior, and functionality of multi-cellular biological systems such as embryos, biofilms, and artificial tissues and their conceptual relationship to amorphous computers. Students discuss relevant literature and introduced to and apply pertinent mathematical and biophysical modeling approaches to various aspect multi-cellular systems, furthermore carry out real biology experiments over the web. Specific topics include: (Morphogen) gradients; reaction-diffusion systems (Turing patterns); visco-elastic aspects and forces in tissues; morphogenesis; coordinated gene expression, genetic oscillators and synchrony; genetic networks; self-organization, noise, robustness, and evolvability; game theory; emergent behavior; criticality; symmetries; scaling; fractals; agent based modeling. The course is geared towards a broadly interested graduate and advanced undergraduates audience such as from bio / applied physics, computer science, developmental and systems biology, and bio / tissue / mechanical / electrical engineering. Prerequisites: Previous knowledge in one programming language - ideally Matlab - is recommended; undergraduate students benefit from BIOE 41, BIOE 42, or equivalent.
Terms: Win | Units: 2-3
Instructors: ; Riedel-Kruse, I. (PI); Kim, H. (TA)

BIOPHYS 342A: Mechanobiology and Biofabrication Methods (ME 342A)

Cell mechanobiology topics including cell structure, mechanical models, and chemo-mechanical signaling. Review and apply methods for controlling and analyzing the biomechanics of cells using traction force microscopy, AFM, micropatterning and cell stimulation. Practice and theory for the design and application of methods for quantitative cell mechanobiology. Weekly lecture and hands-on laboratory sessions. The compressed summer schedule for this course is a ¿boot-camp¿ format with labs and lectures from 9-12 and 1:30-5:00 M-F July 11 -July 22. Classes will be held in Shriram 114. Enrollment limited to 6 students.
Terms: Win, Sum | Units: 3
Instructors: ; Pruitt, B. (PI); Denisin, S. (TA); Denisin, S. (GP); Nekimken, A. (GP)

BIOPHYS 371: Computational Biology in Four Dimensions (BIOMEDIN 371, CME 371, CS 371)

Computational approaches to understanding the three-dimensional spatial organization of biological systems and how that organization evolves over time. The course will cover cutting-edge research in both physics-based simulation and computational analysis of experimental data, at scales ranging from individual molecules to entire cells. Prerequisite: CS 106A or equivalent, and an introductory course in biology or biochemistry. Recommended: some experience in mathematical modeling (does not need to be a formal course).
Terms: Win | Units: 3
Instructors: ; Dror, R. (PI); El-Gabalawy, O. (GP); El-Gabalawy, O. (TA); Lentz, J. (GP)

BIOPHYS 399: Directed Reading in Biophysics

Prerequisite: consent of instructor.
Terms: Aut, Win, Spr, Sum | Units: 1-18 | Repeatable for credit
Instructors: ; Altman, R. (PI); Barron, A. (PI); Block, S. (PI); Boxer, S. (PI); Brandman, O. (PI); Brunger, A. (PI); Bryant, Z. (PI); Butte, M. (PI); Cegelski, L. (PI); Chaudhuri, O. (PI); Chen, X. (PI); Chu, G. (PI); Chu, S. (PI); Cochran, J. (PI); Cui, B. (PI); Das, R. (PI); Davis, M. (PI); Doniach, S. (PI); Dror, R. (PI); Dunn, A. (PI); Feng, L. (PI); Ferrell, J. (PI); Fisher, D. (PI); Fordyce, P. (PI); Frydman, J. (PI); Garcia, C. (PI); Glover, G. (PI); Goodman, M. (PI); Greenleaf, W. (PI); Hanawalt, P. (PI); Harbury, P. (PI); Herschlag, D. (PI); Hodgson, K. (PI); Huang, K. (PI); Jardetzky, T. (PI); Khosla, C. (PI); Kim, P. (PI); Kobilka, B. (PI); Kool, E. (PI); Kopito, R. (PI); Kornberg, R. (PI); Levin, C. (PI); Levitt, M. (PI); Lewis, R. (PI); Li, J. (PI); Li, L. (PI); Liphardt, J. (PI); Long, S. (PI); Maduke, M. (PI); Meyer, T. (PI); Moerner, W. (PI); Pande, V. (PI); Pelc, N. (PI); Prakash, M. (PI); Pruitt, B. (PI); Puglisi, J. (PI); Quake, S. (PI); Rao, J. (PI); Riedel-Kruse, I. (PI); Salzman, J. (PI); Schnitzer, M. (PI); Skotheim, J. (PI); Smith, S. (PI); Solomon, E. (PI); Spakowitz, A. (PI); Spudich, J. (PI); Tang, S. (PI); Teruel, M. (PI); Theriot, J. (PI); Wandless, T. (PI); Wang, B. (PI); Weis, W. (PI); Zare, R. (PI); de la Zerda, A. (PI); Derner, T. (GP); Frank, D. (GP); Geiselhart, K. (GP); Jones, M. (GP)

BIOPHYS 801: TGR Project

Terms: Aut, Win, Spr, Sum | Units: 0 | Repeatable for credit
Instructors: ; Altman, R. (PI); Barron, A. (PI); Block, S. (PI); Boxer, S. (PI); Brandman, O. (PI); Brunger, A. (PI); Bryant, Z. (PI); Butte, M. (PI); Cegelski, L. (PI); Chaudhuri, O. (PI); Chen, X. (PI); Chu, G. (PI); Chu, S. (PI); Cochran, J. (PI); Cui, B. (PI); Das, R. (PI); Davis, M. (PI); Doniach, S. (PI); Dror, R. (PI); Dunn, A. (PI); Feng, L. (PI); Ferrell, J. (PI); Fisher, D. (PI); Fordyce, P. (PI); Frydman, J. (PI); Garcia, C. (PI); Glover, G. (PI); Goodman, M. (PI); Greenleaf, W. (PI); Hanawalt, P. (PI); Harbury, P. (PI); Herschlag, D. (PI); Hodgson, K. (PI); Huang, K. (PI); Jardetzky, T. (PI); Khosla, C. (PI); Kim, P. (PI); Kobilka, B. (PI); Kool, E. (PI); Kopito, R. (PI); Kornberg, R. (PI); Levin, C. (PI); Levitt, M. (PI); Lewis, R. (PI); Li, J. (PI); Li, L. (PI); Liphardt, J. (PI); Long, S. (PI); Maduke, M. (PI); Meyer, T. (PI); Moerner, W. (PI); Pande, V. (PI); Pelc, N. (PI); Prakash, M. (PI); Pruitt, B. (PI); Puglisi, J. (PI); Quake, S. (PI); Rao, J. (PI); Riedel-Kruse, I. (PI); Salzman, J. (PI); Schnitzer, M. (PI); Skotheim, J. (PI); Smith, S. (PI); Solomon, E. (PI); Spakowitz, A. (PI); Spudich, J. (PI); Tang, S. (PI); Teruel, M. (PI); Theriot, J. (PI); Wandless, T. (PI); Wang, B. (PI); Weis, W. (PI); Zare, R. (PI); de la Zerda, A. (PI); Derner, T. (GP); Frank, D. (GP); Geiselhart, K. (GP); Jones, M. (GP)

BIOPHYS 802: TGR Dissertation

Terms: Aut, Win, Spr, Sum | Units: 0 | Repeatable for credit
Instructors: ; Altman, R. (PI); Barron, A. (PI); Block, S. (PI); Boxer, S. (PI); Brandman, O. (PI); Brunger, A. (PI); Bryant, Z. (PI); Butte, M. (PI); Cegelski, L. (PI); Chaudhuri, O. (PI); Chen, X. (PI); Chu, G. (PI); Chu, S. (PI); Cochran, J. (PI); Cui, B. (PI); Das, R. (PI); Davis, M. (PI); Doniach, S. (PI); Dror, R. (PI); Dunn, A. (PI); Feng, L. (PI); Ferrell, J. (PI); Fisher, D. (PI); Fordyce, P. (PI); Frydman, J. (PI); Garcia, C. (PI); Glover, G. (PI); Goodman, M. (PI); Greenleaf, W. (PI); Hanawalt, P. (PI); Harbury, P. (PI); Herschlag, D. (PI); Hodgson, K. (PI); Huang, K. (PI); Jardetzky, T. (PI); Khosla, C. (PI); Kim, P. (PI); Kobilka, B. (PI); Kool, E. (PI); Kopito, R. (PI); Kornberg, R. (PI); Levin, C. (PI); Levitt, M. (PI); Lewis, R. (PI); Li, J. (PI); Li, L. (PI); Liphardt, J. (PI); Long, S. (PI); Maduke, M. (PI); Meyer, T. (PI); Moerner, W. (PI); Pande, V. (PI); Pelc, N. (PI); Prakash, M. (PI); Pruitt, B. (PI); Puglisi, J. (PI); Quake, S. (PI); Rao, J. (PI); Riedel-Kruse, I. (PI); Salzman, J. (PI); Schnitzer, M. (PI); Skotheim, J. (PI); Smith, S. (PI); Solomon, E. (PI); Spakowitz, A. (PI); Spudich, J. (PI); Tang, S. (PI); Teruel, M. (PI); Theriot, J. (PI); Wandless, T. (PI); Wang, B. (PI); Weis, W. (PI); Zare, R. (PI); de la Zerda, A. (PI); Derner, T. (GP); Frank, D. (GP); Geiselhart, K. (GP); Jones, M. (GP)
© Stanford University | Terms of Use | Copyright Complaints