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Biochemistry

MCB 5001 - Biochemistry

Metabolism of carbohydrates, lipids, amino acids, proteins, and nucleic acids, including regulation, and to the structure and function of biological macromolecules. Provides suitable preparation for advanced course work in biochemistry, biophysics, and other areas of molecular biology. Graduate students with considerable laboratory experience may arrange to take only the lecture portion of this course as Biology: MCB 5896 with consent of instructor.

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MCB 5002 - Biochemistry Laboratory

Theory and application of modern techniques for the separation and characterization of biological macromolecules, including several types of liquid chromatography, liquid scintillation spectrophotometry and SDS polyacrylamide gel electrophoresis. Each student will carry out individual projects using selected techniques.

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MCB 5003 - Biophysical Chemistry I

Thermodynamics, electrostatics of polar molecules and ionic solutions, dielectric constants, conductance, acid-base equilibria, molecular interactions.

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MCB 5004 - Biophysical Chemistry II

The physico-chemical behavior of biological macromolecules, their interactions, the forces involved, and the physical methods for studying such systems.

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MCB 5007 - Biophysical Techniques

Laboratory experience in the characterization of macromolecules in solution. Methods such as velocity- and equilibrium-sedimentation, density determination, refractometry and light scattering are covered.

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MCB 5008 - Techniques of Biophysical Chemistry

Theory and applications of biophysical methods for the analysis of the size, shape and interactions of proteins and nucleic acids. Topics include analytical ultracentrifugation, light scattering, X-ray scattering, calorimetry, surface plasmon resonance and single molecule approaches.

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MCB 5010 - Biological Optical Spectroscopy: Practical Applications

Practical applications of spectroscopy in biochemistry and the biological sciences. Topics include fluorescence, circular dichroism and various spectroscopic techniques with particular emphasis on biological macromolecules. Analysis of raw data and interpretation of published results will be used to define the suitability and limits of these techniques. If a student has taken MCB 5038, this course may only be taken if the content is different.

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MCB 5011 - Enzyme Structure and Function

Information at the molecular level derived from protein chemistry, equilibria, kinetics and X-ray diffraction.

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MCB 5012 - Foundations of Structural Biochemistry

Comprehensive introduction to the molecular aspects and dynamics of structural biochemistry. Examination of nucleic acid, protein, and lipid structures including current topics in conformation and folding, enzyme kinetics, nucleic acid stability, ligand/receptor binding, and bioenergetics. Overviews of experimental strategies used to study macromolecular structure and interactions.

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MCB 5013 - Structure and Function of Biological Macromolecules

Fundamentals of protein structure, and the forces that stabilize structure. Recurrent structural motifs, molecular ancestry/homology, and insights into proteins structure evolution. Protein folding and dynamics. Structure-function correlations, and structural basis of regulation. Techniques used to investigate structure: X-ray diffraction, NMR, TEM, AFM, structure prediction, computational simulations. Advanced topics: chaperones; structural genomics; role of misfolded proteins in disease.

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MCB 5014 - Structure and Dynamics of Macromolecular Machines

Biochemical and biophysical characteristics of macromolecular assemblies starting at the atomic level and proceeding to the cellular level. Topics include ribosomes, viruses, poly-merases, membrane protein assemblies and ion transporters, which will be examined through lecture, discussion, and interactive computational modules.

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MCB 5015 - X-ray Structure Analysis

The determination of three-dimensional atomic-level structure by diffraction methods. Small-angle solution scattering. Protein crystallography.

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MCB 5019 - X-ray Diffraction Laboratory

Analysis of low- and high-angle X-ray data from both synthetic and biological macromolecules in amorphous and crystalline states.

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MCB 5022 - Human Disease and the Development of Therapeutic Agents

Molecular basis of human disease and strategies for developing therapeutic treatments. Applications of genetic, cellular, and biochemical information in treating different disease states. Especially appropriate for students interested in biomedical research and the health professions.

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MCB 5025 - Structure and Function of Biological Membranes

Overview of cell membrane structure and function based on a foundation of physical and biochemistry principles. Topics include lipid bilayers, vesicles and liposomes, cholesterol, membrane protein structure and function, transport, membrane fusion, receptors, drug/membrane interactions and membranes in cell regulation.

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MCB 5034 - Human Metabolism and Disease

A thorough analysis of the inter-relationships of metabolic pathways in connection with human health and disease, including inherited metabolic diseases and the role of hormones in metabolic pathways.

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MCB 5035 - Protein Folding

In-depth examination of protein folding in vitro and in vivo. Kinetics and thermodynamics of protein folding and assembly; chaperones in folding and misfolding; misfolding in human disease and biotechnology. Experimental methods used to study protein folding, including NMR, mutagenic and spectroscopic techniques.

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MCB 5038 - Techniques in Structural Biology

A short course to introduce graduate students and selected undergraduates to modern techniques in structural biology. Each course offering covers a specific technique: NMR, computational and graphical analysis of biomolecules, X-ray crystallography, analytical ultracentrifugation, spectroscopy, calorimetry, and others. Also offered as MEDS 5338.

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MCB 5076 - Biomolecular Nuclear Magnetic Resonance Spectroscopy

Open to undergraduate students with consent of instructor. Advanced treatment of NMR spectroscopy as applied to problems in structural biology, particularly protein structure and dynamics. Recommended preparation: courses in biochemistry, organic chemistry, and physical chemistry.

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MCB 5080 - Frontiers in Microbiology

Current topics in microbiology including research advances, impact of microorganisms on the environment and society, their role in health and disease, and applications of microbiological research in academic, government and industrial settings.

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MCB 5099 - Graduate Seminar in Biochemistry

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MCB 5200 - Cell Biology of the Mammalian Secretory Apparatus

Critical reading of the primary literature focusing on how eukaryotic cells synehtsize and traffic secretory and membrane proteins. Emphasis on effectiveness of data presentation in papers.

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MCB 5210 - Molecular Endocrinology

Molecular mechanism(s) of hormone action in vertebrates and invertebrates. Molecular and genetic characterization of hormones, receptors, and signal transduction, and hormone actions at the molecular, cellular, and organismal levels. Includes student presentations on selected papers. (Also offered as PNB 5270).

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MCB 5217 - Biosynthesis of Nucleic Acids and Proteins

Mechanisms of protein and RNA synthesis in prokaryotes and eukaryotes. Topics such as RNA processing, gene splicing, and control of protein and RNA synthesis are discussed.

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MCB 5219 - Developmental and Regenerative Biology

Principles of animal embryonic development and regeneration with emphasis onthe cellular and molecular basis of pattern formation and cell differentiation in avariety of model organisms. Relevance to human development, disease andtherapeutic applications will be emphasized.

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MCB 5233 - Plant Metabolism

Biochemistry and physiology of the principal metabolic systems of plants.

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MCB 5240 - Virology

Biological, biochemical, genetic, and physical characteristics of viruses, with an emphasis on molecular and quantitative aspects of virus-cell interactions.

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MCB 5243 - Molecular Analysis of Development

An analysis of the mechanisms of morphogenesis and differentiation with special emphasis on molecular aspects.

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MCB 5250 - Techniques in Cellular Analysis

Examination of methodologies used to address cell biological questions: how they work, how they synergize, their advantages and disadvantages. Topics include detection and measurement of protein activities and interactions, molecular genetic manipulation of gene expression and protein function, determination of cellular localization and in vivo functional assays.

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MCB 5253 - Eukaryotic Molecular Biology

Considerations of the molecular and cellular biology of eukaryotes with emphasis on current literature. Presentations by faculty and students.

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MCB 5255 - Cellular and Molecular Immunology

Genetic, biochemical, and cellular control of the immune system, addressing such topics as antigen recognition, immune regulation, stress and immunity, apoptosis, and signal transduction.

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MCB 5256 - Animal Cell Culture Laboratory

Lecture and laboratory covering basic aspects of cell culture in vitro, including mammalian, avian, fish and insect cells. Laboratory procedures include: preparation of complex and synthetic media; mass and single cell culture; primary and established cell cultures; large scale growth of cells; culture contaminants; cell preservation; growth factors; measurement of cell growth and viability; cell cloning; cell synchrony; cell cycle analysis; karyotyping; mutant isolation; cell fusion/hybridomas; culture of specialized cells; virus propagation; production of specialized cell products; toxicity testing; cell transformation/immortalization; DNA transfection.

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MCB 5280 - Advanced Cell Biology

Integrative approach to the study of eukaryotic cell biology emphasizing structure, function, and dynamics of the cytoskeleton, membrane, and extracellular matrix.

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MCB 5299 - Current Topics in Cell Biology

Discussion of papers from recent literature. Topics include cytoskeletal function, cell motility, gene expression, and signal transduction, with special focus on their relationship to development, the immune system, and cancer.

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MCB 5426 - Genetic Engineering and Functional Genomics

Methods and applications of genetic engineering, including gene manipulation and transfer techniques in prokaryotes and eukaryotes. Emphasis on the application of recombinant DNA technology in the elucidation of gene function. Recent technological developments in molecular genetics and the societal issues related to these developments will also be addressed. Students will prepare a grant application or other written assignment.

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MCB 5427 - Laboratory Techniques in Functional Genomics

Molecular biological techniques utilized in gene discovery and in the functional characterization of genes in animal development. Taught as a series of short modules, each focusing on a different set of techniques. With a change of content, this course may be repeated for credit.

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MCB 5428 - Theory and Practice of Forensic Identification Methods

Advanced consideration of the theory, practice, and analysis of various techniques used in forensic identification strategies. Taught as a series of stand-alone, “executive format” modules with each focused on a different methodology and consisting of hands-on laboratory combined with lectures and data analysis, problem solving, and/or case studies. With change of content, may be repeated for credit.

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MCB 5429 - Theory and Practice of High Throughput Sequence Analysis

Advanced training in experimental design, sample preparation, quality control, high throughput sequence acquisition and analysis of data sets for a variety of genomics applications. Taught as a series of modules with each focused on a different aspect of the practice of next-generation genome analysis.

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MCB 5430 - Analysis of eukaryotic functional genomic data

Construction and implementation of computational pipelines that integrate available bioinformatics tools to perform processing, analysis and quality control of eukaryotic functional genomics datasets from ChIP-seq, RNA-seq and other high throughput sequencing approaches.No programming experience required.

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MCB 5432 - Molecular and Genetic Approaches to Developing Systems

Topics of current interest in devlopmental biology are presented with related developmental and genetic background information.

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MCB 5445 - Genome Dynamics and Epigenetics

An examination of the mechanisms of eukaryotic genome function and dynamics. Topics include, but are not limited to, chromatin organization, chromosome structure and function, and nuclear architecture.

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MCB 5449 - Molecular Genetics

A course of lectures on the molecular basis of heredity. The nature and properties of hereditary materials, including replication, mutation, recombination, and repair.

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MCB 5452 - Problems in Genetics of Eukaryotes

Consideration of such problems as chromosomal organization, mechanisms of meiotic drive, epigenetic inheritance, chromosome distribution, and transposable elements in model genetic organisms.

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MCB 5454 - Molecular Aspects of Genetics

Integration of the biological effects, molecular structure, expression, and evolution of genes and genomes.

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MCB 5459 - Genetics of Higher Plants

Use of tools of molecular genetics to address problems in the biochemistry, cell biology, and physiology of higher plants. Topics covered include organ development, signal transduction, carbon partitioning, plant-microbe interactions, and plant genome projects.

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MCB 5470 - Current Advances in Epigenetics

Epigenetics is a field of modern biological research that is concerned with influences on gene expression, developmental biology, and disease that are mediated by mechanisms independent of DNA sequence. This course is a literature review course in which each student will present and critically analyze primary literature in epigenetics. All students will present and participate in detailed technical evaluations of selected papers, and develop a written proposal for future research based on the paper(s) that they present individually. Topics will include imprinting, X chromosome inactivation, chromatin dynamics, and cloning (nuclear transfer). Also offered as ANSC 5623.

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MCB 5471 - Current Topics in Molecular Evolution and Systemics

Current concepts, ideas and techniques in the field of molecular evolution, and theoretical problems peculiar to the phylogenetic analysis of molecular data.

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MCB 5472 - Computer Methods in Molecular Evolution

Practical aspects of molecular data analyses. Databank searches, sequence alignments, statistical analyses of sequence data. Parsimony, distance matrix, and spectral analysis methods. Students compile and analyze a data set of their choice.

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MCB 5480 - Frontiers in Applied Genomics

Current topics in genomics research including ethics, impacts on society, and applications in academic and industrial settings.

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MCB 5490 - Industrial Insights

Research and development, regulation, intellectual property protection, and production of commercial services and products from the vantage point of the genomics, biotechnology, and pharmaceutical industries. May be repeated with a change in topic.

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MCB 5491 - Professional Development Seminar

Speakers from industry, government agencies, universities and non-profits provide advice about career paths, business models, hiring and employment opportunities.

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MCB 5499 - Current Topics in Genetics

Intensive reading and discussion of current topics in genetics. May be repeated for credit. Students taking this course will be assigned a final grade of S (satisfactory) or U (unsatistactory.)

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MCB 5616 - Experiments in Bacterial Genetics

Experiments in bacterial genetics emphasizing genetic manipulations using modern techniques for mutant isolation, DNA characterization and cloning. These include the use of transposons, DNA isolation, restriction analysis, gel electrophoresis, PCR and DNA sequencing. Each student conducts an independent project.

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MCB 5621 - Molecular Biology and Genetics of Prokaryotes

Molecular genetics of bacteria, archaebacteria, and their viruses. Transcription and replication of DNA, transformation, transduction, conjugation, genetic mapping, mutagenesis, regulation of gene expression, genome organization. Recommended preparation: a course in general microbiology.

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MCB 5636 - Industrial Microbiology

Biology of industrial microorganisms, including their physiology, selection, and biochemical and genetic manipulation. Primary and secondary metabolite biosynthesis and production. Pollution microbiology and biodegradation.

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MCB 5650 - Genetics of Microorganisms

Basic genetic processes in microorganisms including homologous and nonhomologous recombination, chromosome mechanics, and mutation; genome organization; transposable elements, their uses in genetic analyses and their role in microbal evolution.

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MCB 5670 - Theory and Practice of Laboratory Techniques in Microbiology

Trains participants in techniques, experimental design, sample preparation, quality control, and analysis of data encountered in microbiology laboratories. Taught as a series of modules with each focused on a different technique. With a change of content, may be repeated for credit.

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MCB 5671 - Advanced Theory and Practice of Laboratory Techniques in Microbiology

Advanced training in microbiology related technologies such as next-generation sequencing and other “omic” techniques including experimental design, sample preparation, library preparation, quality control, analysis of large data sets and processing of large number of samples will be covered. The course is taught as a series of modules with each focused on a different technique. With change of content, may be repeated for credit.

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MCB 5672 - Applied Bioinformatics

Computational analysis of biological datasets. Lecture will cover background and theory. In the computer lab, sample data will be used to perform bioinformatics analysis. The course is taught as a series of modules with each focused on a different aspect.

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MCB 5679 - Microbial Physiology

Topics in microbial cell organization, growth, and intermediary metabolism with emphasis on specialized physiological adaptations.

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MCB 5681 - Mechanisms of Bacterial Pathogenicity

An in-depth examination of several host-parasite relationships as models of disease states.

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MCB 5682 - Physiological Genetics of Bacteria

The use of mutants in investigating metabolic pathways and homeostic mechanisms in bacteria, with extensive reference to Escherichia coli and its genetic map.

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MCB 5683 - Biotechnology Seminar

Current topics in biotechnology.

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MCB 5684 - Fermentation and Separation Technology Laboratory

Introduction to techniques used for industrial mass culture of prokaryotic and eukaryotic cells and methods used to extract useful products from these cultures.

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MCB 5699 - Seminar in Microbiology

Discussion of current topics in microbiology.Students taking this course will be assigned a final grade of S (satisfactory) or U (unsatistactory.)

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MCB 5801 - Scientific Writing and Project Development for MCB Graduate Students

Instruction in the practice of scientific writing through group discussions and peer review during preparation of an application to the NSF Graduate Research Fellowship Program. Group discussions in related aspects of graduate student project development.

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MCB 5893 - Special Topics in Cellular and Molecular Biology

Selected topics in cellular and molecular biology presented by invited speakers. May be repeated for credit. Students taking this course will be assigned a final grade of S (satisfactory) or U (unsatistactory.) .

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MCB 5895 - Independent Study

A reading course for those wishing to pursue special work in biology. It may also be elected by undergraduate students preparing to be candidates for degrees with distinction.

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MCB 5896 - Investigation of Special Topics

Advanced study in a field within Molecular and Cell Biology.

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MCB 5899 - Graduate Seminar

Students taking this course will be assigned a final grade of S (satisfactory) or U (unsatistactory.)

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MCB 6000 - Rotations in MCB Laboratories

Open only to students in MCB graduate programs with permission of the instructor. Students taking this course will be assigned a final grade of S (satisfactory) or U(unsatisfactory). Provides entering graduate students with experience in three differentlaboratory settings during the first semester of graduate studies to assist with the selection of a research theme for their degree. Students are expected to participate inlaboratory meetings, journal clubs, benchwork, and other activities as defined by eachof three host faculty members. Grading will be based on an aggregate of the performance in each of the host laboratories. Preference is given to students in the MCB doctoral program.

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MCB 6897 - Research

Conferences and laboratory work covering selected fields of Molecular & Cell Biology.

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