Systems Biology
Faculty of the Committee on Higher Degrees in Systems Biology
Pamela A. Silver, Professor of Systems Biology (Medical School) (Chair)
Debra T. Auguste, Assistant Professor of Biomedical Engineering on the Gordon McKay Endowment, Tutor in Biochemical Sciences
Michael P. Brenner, Glover Professor of Applied Mathematics and Applied Physics, Tutor in Biochemical Sciences
Martha L. Bulyk, Associate Professor of Medicine and Health Sciences and Technology and of Pathology (Medical School)
Lewis C. Cantley, William Bosworth Castle Professor of Medicine and Professor of Systems Biology (Medical School)
George M. Church, Professor of Genetics (Medical School)
Catherine Dulac, Higgins Professor of Molecular and Cellular Biology (on leave spring term)
Walter Fontana, Professor of Systems Biology (Medical School)
Melissa Franklin, Mallinckrodt Professor of Physics (on leave spring term)
Jeremy M. Gunawardena, Senior Lecturer on Systems Biology (Medical School)
Marc W. Kirschner, Carl W. Walter Professor of Systems Biology (Medical School)
Roy Kishony, Associate Professor of Systems Biology (Medical School)
Galit Lahav, Assistant Professor of Systems Biology (Medical School)
Eric S. Lander, Professor of Systems Biology (Medical School)
Richard M. Losick, Maria Moors Cabot Professor of Biology
Gavin MacBeath, Associate Professor of Chemistry and Chemical Biology
L. Mahadevan, Lola England Professor of Applied Mathematics
Christopher Marx, Assistant Professor of Organismic and Evolutionary Biology
Timothy J. Mitchison, Hasib Sabbagh Professor of Systems Biology (Medical School)
Vamsi K. Mootha, Assistant Professor of Systems Biology and Assistant Professor of Medicine (Medical School)
Andrew W. Murray, Herchel Smith Professor of Molecular Genetics
Radhika Nagpal, Assistant Professor of Computer Science on the Gordon McKay Endowment
Daniel Joseph Needleman, Assistant Professor of Applied Physics (SEAS) and of Molecular and Cellular Biology (FAS)
Martin A. Nowak, Professor of Mathematics and of Biology
Erin K. O’Shea, Professor of Molecular and Cellular Biology and of Chemistry and Chemical Biology
Kevin K. Parker, Assistant Professor of Biomedical Engineering on the Gordon McKay Endowment
Johan M. Paulsson, Assistant Professor of Systems Biology (Medical School)
Sharad Ramanathan, Assistant Professor of Molecular and Cellular Biology (FAS), and of Applied Physics (SEAS)
Tom Rapoport, Professor of Cell Biology (Medical School)
Aviv Regev, Assistant Professor of Biology (Broad Institute, MIT)
Frederick P. Roth, Associate Professor of Biological Chemistry and Molecular Pharmacology (Medical School)
Pardis Sabeti, Assistant Professor of Organismic and Evolutionary Biology
Alan Saghatelian, Assistant Professor of Chemistry and Chemical Biology
Alexander F. Schier, Professor of Molecular and Cellular Biology
Brian Seed, Professor of Genetics and Professor of Health Sciences and Technology (Medical School)
Jagesh V. Shah, Assistant Professor of Systems Biology, of Medicine, and of Health Sciences and Technology (Medical School)
William Shih, Assistant Professor of Biological Chemistry and Molecular Pharmacology (Medical School)
Peter K. Sorger, Professor of Systems Biology (Medical School)
Jack Szostak, Professor of Genetics (Medical School)
Antoine van Oijen, Assistant Professor of Biological Chemistry and Molecular Pharmacology (Medical School)
Ralph Weissleder, Professor of Radiology (Medical School)
David A. Weitz, Mallinckrodt Professor of Physics and of Applied Physics (on leave 2008-09)
Xiaoliang Sunney Xie, Professor of Chemistry and Chemical Biology
Xiaowei Zhuang, Professor of Chemistry and Chemical Biology and of Physics
Systems Biology students should consult course listings from the departments of Biological Sciences, Biophysics, Chemistry, the School of Engineering and Applied Sciences (Applied Mathematics, Applied Physics, Computer Sciences, Engineering Sciences), and the School of Medical Sciences.
Cross-Listed Courses for Undergraduates and Graduates
Applied Mathematics 115. Mathematical Modeling
Applied Mathematics 147. Nonlinear Dynamical Systems
Biophysics 170. Quantitative Genomics
Biophysics 242r. Special Topics in Biophysics
[Chemistry 60. Foundations of Physical Chemistry]
Chemistry 161. Statistical Thermodynamics
Chemistry 163. Frontiers in Biophysics
[Computer Science 181. Intelligent Machines: Perception, Learning, and Uncertainty]
Engineering Sciences 145. Physiological Systems Analysis
Engineering Sciences 156. Signals and Systems
[Mathematics 106. Ordinary Differential Equations]
Mathematics 153. Mathematical Biology-Evolutionary Dynamics
MCB 111 (formerly MCB 211). Mathematics in Biology
*MCB 155. Molecular Mechanisms of Gene Control
*MCB 173. Optical Imaging in the Biological Sciences
MCB 195. Foundations of Systems Biology and Biological Engineering
OEB 181. Systematics
OEB 192. Microbial Evolution
[Physics 140. Introduction to Biophysics]
Physics 181. Statistical Mechanics and Thermodynamics
Primarily for Graduates
Systems Biology 200 (formerly Systems Biology 101). A Systems Approach to Biology
Catalog Number: 8701
Walter Fontana (Medical School), Jeremy M. Gunawardena (Medical School), and Johan M. Paulsson (Medical School)
Half course (fall term). Tu., Th., 10-11:30, and a weekly section to be arranged. EXAM GROUP: 12, 13
How do the interactions of molecules and cells allow for the complex behavior of organisms? Quantitative techniques and modeling can shed light on this question. Introduces theory and computation in the context of biological problems.
Note: The course will include an introduction to the use of MATLAB for model-building.
Prerequisite: Mathematics 1b required, and MCB 54 or MCB 56 recommended.
Systems Biology 201. Seminar in Systems Biology
Catalog Number: 5148
Timothy J. Mitchison (Medical School)
Half course (spring term). Hours to be arranged.
This course will examine concepts and methods in systems biology. We will follow the development of the field and the current thinking through paper reading, discussion and lecture.
Cross-Listed Courses Primarily for Graduates
BCMP 200. Molecular Biology
BCMP 201. Proteins: Structure, Function and Catalysis
BCMP 207. Molecular Approaches to Drug Action, Discovery, and Design
Biophysics 204. Structural Biology From Molecules to Cells
Biophysics 205. Computational and Functional Genomics
Biophysics 242r. Special Topics in Biophysics
[Biostatistics 280. Introduction to Computational Molecular Biology]
Cell Biology 201. Molecular Biology of the Cell
Chemical Biology 2100. Introduction to Chemical Biology I
*Engineering Sciences 222. Advanced Cellular Engineering
Genetics 201. Principles of Genetics
Mathematics 243 (formerly Mathematics 234). Evolutionary Dynamics
MCB 212. Topics in Biophysics
Microbiology 200. Molecular Microbiology and Pathogenesis
[OEB 279. Topics in Microbial Metabolic Systems]
Graduate Courses of Reading and Research
*Systems Biology 300hf. Introduction to Systems Biology Research
Catalog Number: 4103
Pamela A. Silver (Medical School) 1595
Half course (throughout the year). M., 6–7:30 p.m.
Introductory lectures introduce the research areas of current program faculty in systems biology.
[*Systems Biology 301. Special Topics in Systems Biology]
Catalog Number: 8834
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Half course (fall term). Hours to be arranged.
An exploration of new directions for the field of systems biology. We will identify major unsolved questions in biology and discuss possible new approaches to these questions offered by systems biology.
Note: Expected to be given in 2009–10.
*Systems Biology 350. Systems Biology Research
Catalog Number: 8370
Pamela A. Silver (Medical School) 1595 and members of the Committee
Upper level Systems Biology students register for this course when they permanently join a lab. Students should register under the supervising PI.
*Systems Biology 399. Introduction to Systems Biology: Rotations
Catalog Number: 5863
Pamela A. Silver (Medical School) 1595
Half course (fall term; repeated spring term). Hours to be arranged.
The course will introduce the research areas of faculty performing research in systems biology. Intended for Systems Biology lab rotations.
Cross-Listed Graduate Courses of Reading and Research
*Computer Science 307,308. Biologically-Inspired Multi-Agent Systems, Distributed Systems, and Computational Biology