Quantitative understanding of biological systems through the application of physical principles. Course will emphasize topics that span multiple length and time scales, and different levels of biological organization. Two to four topics per semester, including possibly organismal motion from molecular processes to whole organisms, nervous systems from membrane channels to neuronal networks, noise in biology, novel biophysical technologies, etc. Prerequisite: Biology 201L, Mathematics 212 and 216 or equivalent, and calculus based introductory physics or permission of the instructors.
How theory and experimental techniques from physics can be used to analyze and understand biological structure and function, including chemical, mechanical, electrical, collective, and information-processing aspects. Prerequisites: Biology 201L and knowledge of statistical physics by taking either Physics 363 or Chemistry 311.
An exploration of how we have come to understand the relationships between genes and traits, with a focus on traits of biomedical importance. We explore how physiological systems biology can be used to understand the causal pathways by which genes affect traits. Examples will be taken largely from the biomedical literature with a focus on genetic diseases and the roles of genetic background and environment in determining how (and why) genes affect traits. Readings and class participation, short papers and oral presentations on research projects. Nijhout
Evolution of genes, gene families, and genomes and relation to their structure, function and history. Contemporary computer-based analysis of nucleic acid and protein evolution including: BLAST searches; sequence alignment; estimation of rates, patterns, types of substitution; interpreting evolutionary changes in structure-function relations; protein homology modeling; visualizing and annotating protein structure. Prerequisite: Biology 201L or consent of the instructor. One course.
A first course in biological modeling. Emphasizes methods common to model building in general. Mathematica based lab develops and applies a high level programming language to simplify model building. Topics drawn from cell and molecular biology, molecular evolution, enzyme catalysis, biochemical pathways, population genetics, ecology, systems biology, and developmental biology. Prerequisite: Mathematics 103 or equivalent. One course.
A first course applying mathematics to biological problems. Topics drawn from cell and molecular biology, molecular evolution, enzyme catalysis, biochemical pathways, ecology, systems biology, and developmental biology. Prerequisite: Mathematics 212 or equivalent. One course.