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Course Criteria
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1.00 - 3.00 Credits
The purpose of this seminar series is to update biology undergraduates about university and departmental functions, seminars, etc. that are pertinent or useful. In addition, research talks by faculty and undergraduates will be used to introduce students to the research being conducted in faculty laboratories. Additional topics may include graduate and medical school applications, career options, topics in the press, and important scientific discoveries.
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1.00 - 3.00 Credits
No course description available.
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12.00 Credits
This course covers the application of computers to solve problems in biology and medicine. Since computers are increasingly used in biological research, the course is valuable for all biological sciences majors and interested students from other departments. It is intended for students without computer programming experience (students with a desire to apply programming methods to these problems should take the more advanced course 03-511, Computational Molecular Biology and Genomics). Topics covered are computational molecular biology (analysis of protein and nucleic acid sequences), biological modeling and simulation (including computer models of neuron behavior, biochemical kinetics, and simulation of mutation), and biological imaging. Course work consists primarily of homework assignments making use of software packages for these applications. Students may not get credit for 03-310 and 03-510, 03-311 or 03-312.
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6.00 Credits
This course presents both the theoretical underpinnings of computational methods used in modern molecular biology and practical training in using these methods and the data resources to which they can be applied. It is intended for students without computer programming experience. Topics included are biological sequencing and databases, sequence searching and alignment, protein structure, whole genome resources, genetic variations and their relationship to phenotype, gene and protein expression, and biological networks and pathways. Course work consists primarily of homework assignments making use of online resources for these applications. Students may not get credit for both 03-310 and 03-311 or 03-312.
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6.00 Credits
This course presents both the theoretical underpinnings of computational methods relevant to cell biology and practical training in using these methods and the data resources to which they can be applied. It is intended for students without computer programming experience. Topics included are bioimage processing and analysis, automated analysis and modeling of microscope images, mathematical methods used for biological modeling, basic computational models of population dynamics, neuronal signaling, biochemical reactions and drug metabolism, and cell simulations. Course work consists primarily of homework assignments making use of online resources for these applications. Students may not get credit for both 03-310 and 03-311 or 03-312.
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9.00 Credits
The course is designed to introduce students to the fundamental principles of magnetic resonance imaging (MRI) and its application in neuroscience. MRI is emerging as the preeminent method to obtain structural and functional information about the living human brain. This methodology has helped to revolutionize neuroscience and the study of human cognition. The specific topics covered in this course will include: introduction to spin gymnastics, survey of imaging methods, structural brain mapping, functional MRI (fMRI), and MR spectroscopy (MRS). Approximately, one third of the course will be devoted to introductory concepts of magnetic resonance, another third to the discussion of MRI methods, and the remaining third will cover a broad range of neuroscience applications. Guest lectures will be incorporated into the course from neuroscientists and psychologists who use MRI in their own research.
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4.50 Credits
This course in will examine the processes by which genomes evolve and how this genetic variation leads to phenotypic diversity. An introduction to gene regulation, how the genome controls development, comparisons of development and the phenotypic diversity in animals will be provided. Then we will consider ways in which genomes evolve, followed by in depth coverage of how gene regulation has evolved (focusing on cis regulatory evolution and non-coding RNA regulatory evolution). Finally the concept of gene regulatory network control of development and understanding evolution as change in these networks will be examined. Concepts and specific examples will come through reading of primary literature and selected readings from advanced texts.
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4.50 Credits
An advanced introduction to theory and practice of phylogenetic analysis (evolutionary tree reconstruction), with a focus on molecular evolution. Basic concepts will be introduced in the context of a historical survey of phylogeny reconstruction. A comprehensive introduction to phylogenetic methods will be presented, including data selection, multiple sequence alignment, character state data versus distance matrices, sequence evolution models, and the four major approaches to phylogeny reconstruction: Parsimony, Distance matrix, Maximum likelihood, and Bayesian analysis. Sources of error and methods for assessing the reliability of phylogenetic inference will be discussed. We will cover additional topics as time allows, such as phylogenetic hypothesis testing, genome scale approaches, the interface between phylogenetics and population genetics, gene tree reconciliation, horizontal gene transfer, and phylogenetic networks.
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1.00 Credits
This course is designed for students in the BS in Computational Biology degree program. It will be taught as a first mini as a required co-requisite for 03-343, Experimental Genetics and Molecular Biology and is designed to be an introduction to basic laboratory practices. The course will introduce biological and chemical safety training and basic laboratory practices. Techniques of solution preparation and titration, pipetting, UV/VIS spectroscopy, and quantitation of biological compounds will be covered.
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12.00 Credits
This laboratory course is designed to teach experimental methods of modern biology. Experiments in microbial genetics, molecular biology and eukaryotic genetics are performed. Emphasis is placed on understanding and applying the biological principles of each experiment. This course is designed to be taken during the junior year and is intended to prepare students for undergraduate research. Experimentation using living organisms and/or their tissues, cells or molecules is an essential component of this course.
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