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Biology |
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BIOL 7994 - Independent Study in Biology
This course is for graduate students participating in graded, graduate-level courses offered at MLBS during summer sessions. Students enroll in this course during the fall semester following completion of the MLBS summer course. Credits earned are the same as the number of credits designated for the MLBS course. Upon completion of the course, the instructor of record provides a grade and a written evaluation of each student’s work in the course.
Credits: 1-4 |
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BIOL 8040 - Colloquium in Biology
A weekly conference in which students present reports covering various topics that cross development, genetics, and physiology. May be repeated for credit.
Prerequisite: Instructor permission.
Credits: 2 |
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BIOL 8050 - Advanced Evolutionary Biology
This course will cover a range of evolutionary concepts and approaches, including levels of selection, the role of evolution in structuring ecological communities, game theoretical models of adaptation, frequency-dependence, neutral processes and drift, the evolution of sex, the evolution of virulence, the molecular basis of adaptation, population and quantitative genetics, and the evolution of genome structure.
Credits: 2 |
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BIOL 8070 - Colloquium in Population Biology A weekly conference arranged around a current topic. May be repeated for credit.
Prerequisite: Instructor permission.
Credits: 2 |
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BIOL 8200 - Structure and Regulation of Eukaryotic Genes
Studies the structure, regulation, and evolution of eukaryotic genes, reviewing current literature and ideas in this field.
Prerequisite: Instructor permission.
Credits: 3 |
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BIOL 8250 - Communicating in Science
This course will supplement the “7 Habits for Highly Effective Grad Students” course with hands-on practice in presenting scientific data and communicating effectively in scientific writing and oral presentations. Students will meet weekly to practice and critique oral presentations, scientific manuscripts, figures and tables, statistical results, grant proposals, etc. Req. of all first-year graduate students in biology.
Credits: 1 |
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BIOL 8270 - Seven Habits of Highly Effective Graduate Students
Weekly discussion to acclimate new graduate students to rigors of academic research in the Department of Biology. There will be an emphasis on time management, scientific writing, presentations, and work-life balance. A rotation of Biology faculty, students, and staff will contribute to the weekly discussion.
Credits: 2 |
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BIOL 8490 - Advanced Drosophila Genetics
Examines genetic techniques available in Drosophila: segregation and use of translocation heterozygotes in the generation of segmental anueploids; segregation and use of compound chromosomes, including their use in the half-tetrad analysis of gene conversion events; methods for making mosaics; methods for P-element induced mutagenesis, including site directed mutagenesis; P-element mediated transformation; and using enhancer traps.
Prerequisite: BIOL 3010 or equivalent.
Credits: 2 |
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BIOL 8510 - Field Biology at Mountain Lake Biological Station
Field experiential courses in evolution, ecology, behavior and biology taught at the Biology Department’s Mountain Lake Biological Station (MLBS), a field research and teaching facility located in southwestern Virginia. Students may enroll for more than one section as each section is a specialized topic.
Credits: 1 to 4 |
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BIOL 8559 - New Course in Biology New course in the subject of biology.
Credits: 1 to 4 |
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BIOL 8800 - Selected Topics in Genetics A weekly conference with reports from recent literature on genes and gene action.
Credits: 2 |
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BIOL 8810 - Selected Topics in Evolution A weekly seminar on current problems with reports from recent literature.
Prerequisite: Instructor permission.
Credits: 2 |
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BIOL 8820 - Selected Topics in Developmental Biology A discussion of current problems.
Prerequisite: Instructor permission.
Credits: 2 |
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BIOL 8840 - Selected Topics in Physiology A discussion of current problems.
Credits: 2 |
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BIOL 8850 - Selected Topics in Molecular Genetics A weekly seminar on current problems with reports from recent literature.
Credits: 2 |
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BIOL 8860 - Selected Topics in Cell Biology A discussion of current problems.
Prerequisite: Instructor permission.
Credits: 2 |
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BIOL 8870 - Selected Topics in Developmental Genetics A discussion of current problems.
Prerequisite: Instructor permission.
Credits: 1 to 2 |
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BIOL 8880 - Selected Topics in Biochemistry A discussion of current problems.
Prerequisite: Instructor permission.
Credits: 2 |
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BIOL 8900 - Selected Topics in Developmental Botany A discussion of current problems.
Prerequisite: Instructor permission.
Credits: 3 |
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BIOL 8998 - Non-Topical Research, Preparation for Research For master’s research, taken before a thesis director has been selected.
Credits: 3 to 12 |
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BIOL 8999 - Non-Topical Research For master’s thesis, taken under the supervision of a thesis director.
Credits: 3 to 12 |
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BIOL 9010 - Research in Genetic Development Research in Genetic Development
Credits: 1 to 12 |
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BIOL 9030 - Research in Yeast Genetics Research in Yeast Genetics
Credits: 1 to 12 |
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BIOL 9040 - Research in Yeast Genetics Research in Yeast Genetics.
Credits: 1 to 12 |
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BIOL 9070 - Research in Molecular Genetics Research in Molecular Genetics
Credits: 1 to 12 |
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BIOL 9090 - Research in Developmental Biology Research in Developmental Biology
Credits: 1 to 12 |
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BIOL 9110 - Research on Protein Structure Research on Protein Structure
Credits: 1 to 12 |
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BIOL 9150 - Research in Biochemistry Research in Biochemistry
Credits: 1 to 12 |
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BIOL 9230 - Research in Neuroethology of Electric Fish Research in Neuroethology of Electric Fish
Credits: 1 to 12 |
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BIOL 9250 - Research in Population Biology Research in Population Biology
Credits: 1 to 12 |
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BIOL 9270 - Research in Plant Physiology Research in Plant Physiology
Credits: 1 to 12 |
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BIOL 9290 - Research in Plant Biology Research in Plant Biology
Credits: 1 to 12 |
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BIOL 9330 - Research in the Circadian Organization of Vertebrates Research in the Circadian Organization of Vertebrates
Credits: 1 to 12 |
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BIOL 9350 - Research in Cell Structure and Function Research in Cell Structure and Function
Credits: 1 to 12 |
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BIOL 9370 - Research in Gene Expression during Development Research in Gene Expression during Development
Credits: 1 to 12 |
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BIOL 9390 - Research in Behavior Neuroendocrinology Research in Behavior Neuroendocrinology
Credits: 1 to 12 |
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BIOL 9410 - Yeast Morphogenesis Research in Yeast Morphogenesis
Credits: 1 to 12 |
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BIOL 9450 - Research in Evolutionary Biology Research in Evolutionary Biology
Credits: 1 to 12 |
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BIOL 9470 - Research in Neurophysiology and Developmental Neurobiology Research in Neurophysiology and Developmental Neurobiology
Credits: 1 to 12 |
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BIOL 9559 - New Course in Biology New course in the subject of biology.
Credits: 1 to 4 |
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BIOL 9600 - Research in Cell Structure and Function Research in Cell Structure and Function
Credits: 1 to 12 |
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BIOL 9630 - Research in Drosophila Neurobiology Research in Drosophila Neurobiology
Credits: 1 to 12 |
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BIOL 9650 - Research in Ecological Genetics Research in Ecological Genetics
Credits: 1 to 12 |
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BIOL 9670 - Research in Animal Cell Growth Research in Animal Cell Growth
Credits: 1 to 12 |
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BIOL 9770 - Research in Molecular Aspects of Development Research in Molecular Aspects of Development
Credits: 1 to 12 |
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BIOL 9790 - Research in Development and Function of Neuronal Networks Research in Development and Function of Neuronal Networks
Credits: 1 to 12 |
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BIOL 9810 - Research in Developmental Genetics and Morphogenesis Research in Developmental Genetics and Morphogenesis
Credits: 1 to 12 |
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BIOL 9830 - Research in the Neurophysiological Basis of Circadian Rhythms Research in the Neurophysiological Basis of Circadian Rhythms
Credits: 1 to 12 |
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BIOL 9995 - Topical Research in Biology Independent research with a member of the Biology faculty in preparation for thesis or dissertation research.
Credits: 1 to 12 |
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BIOL 9998 - Non-Topical Research, Preparation for Doctoral Research For doctoral research, taken before a dissertation director has been selected.
Credits: 1 to 12 |
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BIOL 9999 - Non-Topical Research For doctoral dissertation, taken under the supervision of a dissertation director.
Credits: 1 to 12 |
Biomedical Engineering |
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BME 6026 - Quantitative Models of Human Perceptual Information Processing
An introduction to the measurement and modeling of human perceptual information processing, with approaches from neurophysiology to psychophysics, for the purposes of system design. Measurement includes classical psychophysics, EEG field potentials, and single-neuron recordings. Modeling includes signal detection theory, neuronal models (leaky integrate-and-fire, Hodgkin-Huxley, and models utilizing regression, probability, and ODEs).
Prerequisite: Graduate standing; background courses in ordinary differential equations, statistics and probability; or consent of instructor.
Credits: 3 |
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BME 6060 - Biomedical Innovation Multi-disciplinary problem solving is an essential component of innovation, especially in complex systems such as health care. The overall goal of this course is to provide graduate students with supervised real-world experience identifying problems in health care and developing solutions using a collaborative approach. Prerequisites: Graduate standing in any participating school and instructor permission.
Credits: 3 |
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BME 6102 - Engineering Physiology II
Second part of physiology sequence for engineering students; focuses on physiology of the cardiovascular, pulmonary, renal, and nervous systems; emphasizes quantitative analysis of organ function, particularly the use of mathematical models to identify and understand key underlying mechanisms.
Prerequisite: BME 6101
Credits: 3 |
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BME 6103 - Physiology I
We learn how excitable tissue, nerves and muscle, and the cardiovascular and respiratory systems function. You will develop an understanding of mechanisms, with an introduction to structure, an emphasis on quantitative analysis, and integration of hormonal and neural regulation and control.
Prerequisites: introductory undergraduate courses in biology, chemistry, physics and calculus or instructor permission.
Credits: 3 |
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BME 6104 - Physiology and Pathophysiology This course will emphasize a fundamental understanding of physiology with a focus on mechanisms, and continues the coverage of major systems from BIOM 6103. Studies the renal, gastrointestinal, endocrine, and central nervous systems. Integration of function from molecule to cell to organ to body. Includes some functional anatomy. Quantitative understanding of problems like salt and water balance through class work and homework sets. Five lectures on specific diseases and their pathophysiology.
Prerequisite: BME 6103 or instructor permission.
Credits: 3 |
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BME 6310 - Mathematics, Modeling, and Computation in Biomedical Engineering
The principle objective of this course is to instruct graduate students on fundamental mathematical, modeling, and computational principles of relevance in biomedical engineering. The course is structured to provide lecture material, biomedical examples that use modeling and computation, and homework/exams that strengthen the mathematical and computational foundation of the graduate students.
Prerequisites: 1. BME 6101: Physiology I (or equivalent) 2. SEAS grad student status 3. Some previous exposure to probability-statistics, Fourier analysis, and linear systems 4. Or instructor permission
Credits: 3 |
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BME 6311 - BME Measurement Principles
Students will gain a fundamental understanding of the theoretical principles underlying biomedical measurements. Topics are organized sequentially from signal initiation through signal processing to downstream statistical analysis of measurements. Students will be exposed to the practical implementation of general principles through homework assignments that involve the analysis and evaluation of molecular, cellular, and clinical measurements.
Prerequisites: 1. BME 6101: Physiology I (or equivalent) 2. SEAS graduate student status 3. Some previous exposure to probability-statistics, Fourier analysis, and linear systems 4. Or Instructor Permission
Credits: 3 |
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BME 7370 - Quantitative Biological Reasonsing
Provides students with a quantitative framework for identifying and addressing important biological questions at the molecular, cell, and tissue levels. Focuses on the interplay between methods and logic, with an emphasis on the themes that emerge repeatedly in quantitative experiments.
Prerequisites: BME 6101 (or equivalent), SEAS graduate student status, or instructor permission.
Credits: 3 |
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BME 7641 - Bioelectricity
Studies the biophysical mechanisms governing production and transmission of bioelectric signals, measurement of these signals and their analysis in basic and clinical electrophysiology. Introduces the principles of design and operation of therapeutic medical devices used in the cardiovascular and nervous systems.
Prerequisite: BME 6310 or instructor permission.
Credits: 3 |
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BME 7782 - Medical Imaging Systems Theory
Develops an intuitive understanding of the mathematical systems theory needed to understand and design biomedical imaging systems, including ultrasound, magnetic resonance imaging and computed tomography. Topics will include multidimensional Fourier transform theory, image reconstruction techniques, diffraction theory, and Fourier optics.
Prerequisite: BME 6310 or equivalent exposure to linear systems theory or instructor permission.
Credits: 3 |
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BME 7784 - Medical Image Analysis
Comprehensive overview of medical image analysis and visualization. Focuses on the processing and analysis of these images for the purpose of quantitation and visualization to increase the usefulness of modern medical image data. Topics covered involve image formation and perception, enhancement and artifact reduction, tissue and structure segmentation, classification and 3-D visualization techniques as well as pictures archiving, communication and storage systems. Involves ‘hands-on’ experience with homework programming assignments.
Prerequisite: BIOM 6310 and ECE 6782 or instructor permission.
Credits: 3 |
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BME 7806 - Biomedical Applications of Genetic Engineering
Provides biomedical engineers with a grounding in molecular biology and a working knowledge of recombinant DNA technology, thus establishing a basis for the evaluation and application of genetic engineering in whole animal systems. Beginning with the basic principles of genetics, this course examines the use of molecular methods to study gene expression and its critical role in health and disease. Topics include DNA replication, transcription, translation, recombinant DNA methodology, methods for analyzing gene expression (including microarray and genechip analysis), methods for creating genetically-engineered mice, and methods for accomplishing gene therapy by direct in vivo gene transfer.
Prerequisite: BME 6103, undergraduate-level cell and/or molecular biology course. (e.g., BME 2104) or instructor permission. Suggested preparation: biochemistry, cell biology, genetics, and physiology.
Credits: 3 |
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BME 8315 - Computational Systems Bioengineering
In this course students will gain working knowledge of constructing mathematical and computational models of biological processes at many levels of organizational scale from genome to whole-tissue. Students will rotate through several modules where they will hear lectures, read literature, and participate in discussions focused on the various modeling techniques.
Prerequisites: BME 6101/6102: Physiology (or equivalent); 2. One of the following courses in cellular and/or molecular biology: BME 2104: Cell and Molecular Biology for Engineers, BME 7806: Genetic Engineer.
Credits: 3 |
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BME 8730 - Diagnostic Ultrasound Imaging
Underlying principles of array based ultrasound imaging. Physics and modeling techniques used in ultrasound transducers. Brief review of ID circuit transducer models. Use of Finite Element techniques in transducer design. Design considerations for 1.5D and 2D arrays will be reviewed. Diffraction and beamforming will be introduced starting from Huygen’s principle. FIELD propagation model will form an important part of the class. In depth discussion of various beamforming and imaging issues such as sidelobes, apodization, grating lobes, resolution, contrast, etc. The course addresses attenuation, time-gain-compensation and refraction. Finally, speckle statistics and K-Space techniques will be introduced. Laboratories will involve measuring ultrasound image metrics, examining the effect of various beamforming parameters and simulating these on a computer using Matlab.
Prerequisite: instructor permission, BIOM 6310 and BIOM 6311. Preparation: Undergraduate Physics, Electronic circuit analysis, Differential Equations, Fourier and Laplace Transforms, Sampling Theorems.
Credits: 3 |
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BME 8782 - Magnetic Resonance Imaging
The course covers the physical principles of nuclear magnetic resonance, the biological and medical problems addressed using MRI, the analysis and design of MRI pulse sequences from a signal processing perspective, and MR image reconstruction techniques. It will introduce various advanced topics, such as cardiac MRI and spectroscopic imaging. The course will include laboratory sessions working with an MRI scanner.
Prerequisites: BME 7782 Biomedical Imaging Systems Theory, or knowledge of 2D Fourier transforms and linear systems theory.
Credits: 3 |
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BME 8783 - Advanced Magnetic Resonance Imaging
Advanced physics and applications of magnetic resonance imaging and spectroscopy will be covered. Upon completion of this course, the student will understand the factors that affect the MRI signal, and will know how these factors can be exploited to image or measure various aspects of physiology with MR.
Prerequisites: BME 8782 Magnetic Resonance Imaing and MATLAB experience.
Credits: 3 |
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BME 8823 - Cell Mechanics, Adhesion, and Locomotion
Biomechanics and structural biology of cell structure and function, focusing on quantitative description and measurements of cell deformability, adhesion, and locomotion. Cell deformability: erythrocyte properties, membrane mechanics, shear, bending, and area elasticity. Leukocyte structure and deformability. Structural basis of plasma membrane, lipid bilayer, surface structures, nucleus, organelles, cell junctions, cytoskeleton, membrane transport, active cytoskeletal functions, specific and non-specific forces between molecules, protein structure, molecular graphics. Cell adhesion molecules: families of adhesion molecules, cell-cell and cell-matrix binding, biochemical characteristics, regulation of expression, regulation of binding avidity, functional role. Cell adhesion assays: detachment assays, aggregation of leukocytes and platelets, controlled shear systems, flow chambers. Mechanics of cell adhesion: equilibrium analysis of cell adhesion, models of cell rolling, adhesion bond mechanics. Liposomes, microbubbles, and applications to targeted adhesion. Cell motility: measurement of active forces and motility in cells, molecular motors. Effects of mechanical stress and strain on cell function.
Prerequisite: Instructor permission.
Credits: 3 |
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BME 8890 - Biomolecular Engineering
In this class, students design treatment strategies for cancer and cardiovascular disease based on molecular bioengineering principles. Special topics will include design of nanoparticle drug and gene delivery platforms, materials biocompatibility, cancer immunotherapy, and molecular imaging.
Prerequisites: Undergraduate coursework in cell and molecular biology and biomechanics. Recommended undergraduate course in transport processes.
Credits: 3 |
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BME 8900 - Graduate Teaching Instruction For master’s students.
Credits: 1 to 12 |
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BME 8995 - M.E. Supervised Project Research (M.E. STUDENTS ONLY)
FOR M.E. STUDENTS ONLY. A research project in biomedical engineering conducted in consultation with a faculty advisor. Includes the design, execution, and analysis of experimental laboratory work and computational or theoretical computer analysis of a problem. Fulfills the project requirement for the Biomedical Engineering Masters of Engineering degree.
Prerequisites: Instructor Permission Required.
Credits: 1 to 6 |
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BME 8999 - Master’s Research Master’s Research
Credits: 1 to 12 |
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BME 9000 - Graduate Teaching Instruction For doctoral students.
Credits: 1 to 12 |
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Biomedical Sciences |
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BIMS 5012 - Cell Structure and Function
A beginning graduate course in molecular cell biology examining the functional organization of eukaryotic cells and the interactions of cells with their surroundings. General and specialized forms of cell signaling are discussed, and events involved in regulating cell proliferation and differentiation are emphasized.
Credits: 5 |
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BIMS 5030 - Macromolecular Structure and Function
This integrated course provides the necessary background at the professional level for careers in a variety of biological and physical sciences.
Prerequisites: Calculus, organic chemistry, physical chemistry. Some introductory knowledge assumed.
Credits: 4 |
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BIMS 5410 - Computational Methods in Diabetes and Endocrinology
A focused introduction to contemporary quantitative methods applied to basic and clinical diabetes and endocrine research. Topics may include the clinical blood glucose optimization problems of diabetes, history of quantifying characteristics of T1DM and T2DM, error-grid analysis, behavioral determinants of T1DM control, risk analysis of blood glucose data, use of self-monitoring blood glucose data for evaluation of patients’ glycemic control, stochastic modeling of blood glucose fluctuations, network modeling of blood glucose dynamics, and analysis of continuous monitoring data.
Prerequisites: consent of advisor.
Credits: 4 |
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BIMS 5550 - Neural Development and Regeneration
This course will cover basic principles and current research topics concerning neural development and regeneration. Sections will focus on gene regulatory and signal transduction networks involved in early neural development and later events refining regional specificity within the brain. Topics will include neuronal plasticity, neural stem cells, developmentally-based neuronal diseases, and issues concerning regeneration of the nervous system.
Credits: 2 |
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BIMS 5559 - New Course in Biomedical Sciences New course in the subject of biomedical sciences.
Credits: 1 to 4 |
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BIMS 6000 - Core Course in Integrative Biosciences
This course is designed to equip students with core concepts and fundamental skill sets needed for biomedical research. It combines traditional didactic lectures with small group and individual learning activities, problem solving exercises, workshops, and hands-on analyses of data sets. The course emphasizes the integration of topics spanning the fields of biochemistry, cell and molecular biology, and genetics.
Credits: 10 |
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BIMS 6559 - New Course in Biomedical Sciences New course in the subject of biomedical sciences.
Credits: 1 to 4 |
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BIMS 7100 - Research Ethics
Beginning in 1989, the National Institutes of Health introduced a requirement that institutions provide a program of instruction in the responsible conduct of research (NIH Guide for Grants and Contracts, Volume 18, Number 45, 1989). This was later expanded to require that all fellows on NIH training grants should receive instruction in the responsible conduct of research. The requirement does not specify a particular format or curriculum. However, recommendations are made that several areas should be covered in the instruction: conflict of interest, responsible authorship, policies for handling misconduct, policies regarding the use of human and animal subjects, and data management. This course is designed to help student consider each of these areas and therein formulate an understanding of responsible conduct in research.
Credits: 1 |
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BIMS 7559 - New Course in Biomedical Sciences New course in the subject of biomedical science.
Credits: 1 to 4 |
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BIMS 8010 - Gene Structure, Expression and Regulation
Study of the molecular biology of bacterial and eukaryotic cells, emphasizing the application of recombinant DNA for elucidation of gene structure, the mechanism of gene expression, and its regulation. Five lecture hours.
Credits: 5 |
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BIMS 8050 - Explorations in Human Disease Explorations in Human Disease
Credits: 1 |
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BIMS 8051 - Cell & Molecular Biology Proj Cell and Molecular Biology Projects.
Credits: 1 to 12 |
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BIMS 8052 - Cell & Molecular Biol Projects Cell and Molecular Biology Projects.
Credits: 1 to 12 |
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