Department of Chemistry Biochemistry

Courses

Courses offered in the current and upcoming semester
CHM501 for New Students Courses in Biochemistry
Courses in Analytical Chemistry Courses in Organic Chemistry
Courses in Physical Chemistry Courses in Inorganic and Materials Chemistry
Additional Graduate Course Offerings in Chemistry and Biochemistry    

CHM 501 Seminar

CHM 501: CHM501 for New Students is a seminar course designed to educate students about the different types of faculty research. The course length is approximately 6 weeks. The purpose of this course is to serve as an introduction to the Department of Chemistry and Biochemistry and to its faculty. All new graduate students must take this course during their first fall semester.
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Graduate Courses in Analytical Chemistry

CHM 521: Chemometrics (fall or spring, generally offered every other year) (3 hr)
Overview of chemometric tools in analytical chemistry, including multivariate calibration, spectral deconvolution, and experimental design. 2 hours lecture, 4 hours laboratory.

CHM 523: Advanced Analytical Chemistry (fall) (3 hr)
Theoretical principals of analytical instrumentation and measurement. 3 hours lecture.
Prerequisites: Both CHM 325 and 326 or instructor approval

CHM 524: Separation Science (fall or spring, generally offered alternate years) (3 hr)
Separation science forms the basis for most biochemical, genomic, proteomic, organic, environmental and industrial process analyses. The unifying principles and specific applications for all areas of traditional separations are addressed including high-pressure liquid chromatography (reverse-phase, ion-exchange, gel/size exclusion), gas chromatography, field flow fractionation, supercritical fluid chromatography, slab/gel electrophoresis, capillary electrophoresis, time-of-flight MS, sector MS, MALDI-MS, among others. Special emphasis will be placed on the role of separation science principles in microfluidics and its interface with nanotechnology and traditional electronic materials. 2 hours lecture, 4 hours laboratory.

CHM 525: Analytical Spectroscopy (spring) (4 hr)
Theoretical and practical considerations involving the use of optical instruments for chemical analyses. 3 hours lecture, 3 hours laboratory.

CHM 527: Electroanalytical Chemistry (generally offered every other year) (4 hr)
Electrochemistry forms the basis for powerful and specific chemical sensing systems. The relative ability of specific molecules to accept or lose an electron through an electrochemical circuit allows for the identification of those species and their concentration. This and other related methods can help to understand neurochemistry, biology, corrosion, fundamental chemistry, and environmental pollutants. Theoretical and practical considerations for modern electroanalytical chemistry, including voltammetry, potentiometry, and microelectrode analysis, are discussed.  2 hours lecture, 6 hours laboratory.

CHM 528: Bioanalytical Chemistry (currently offered under CHM598; generally offered every other year) (3 hr)
A variety of analytical techniques are having major impact in helping to understand biological systems. Proteomics, genomics, neurochemistry, early cancer detection, etc. all depend upon state-of-the-art analytical chemical analysis. This course explores all relevant techniques including separations, mass spectrometry, DNA & RNA arrays, among others.

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Graduate Courses in Organic Chemistry

CHM 531: Advanced Organic Chemistry I (fall) (3 hr)
Chemical bonding including valence bond and molecular orbital theories, applications of approximate molecular orbital theories. Stereochemistry of organic compounds, symmetry point groups, conformational and configurational stereoisomers and NMR methods based on diastereotopicity. Molecular mechanics, MM2 and semiempirical molecular orbital methods. Aromaticity and the PMO method, alternate and non alternate hydrocarbons. Pericyclic reactions, allowed and forbidden reactions, aromatic transition state and frontier molecular orbital theories and correlation diagrams.
Prerequisites: CHM 318 (or CHM 332), and CHM 346 (or equivalents)

CHM 532: Advanced Organic Chemistry II (spring) (3 hr / currently 2 hr)
Organic mechanisms, thermodynamic and kinetic control, isotope effects, reactive intermediates and structure/reactivity relationships. Nucleophilic substitutions, carbocations and nonclassical ions. Stereochemical issues in eliminations and reactions of carbenes. Nucleophilic addition to double bonds, conjugate additions. Multistep reactions, Swern oxidations and the Mitsunobu reaction. Free radical reactions, detection of intermediates, EPR, CIDNP. Electron transfer reactions, Marcus theory, charge radical species.
Prerequisites: CHM 531 (or equivalents)

CHM 535: Medicinal Chemistry (currently offered under CHM598; fall or spring, generally offered once a year) (3 hr)
Introduction to Medicinal Chemistry. How are drugs discovered? Pharmacophore Recognition. Rational development of Drug Leads. Physical Properties of Substituents. Receptors. Theory and Chemical Interactions. Types of Receptors and Receptor Drugs. Enzymes and Enzyme Inhibitor Drugs. Metabolism.
Prerequisites: Instructor approval

CHM 537: Organic Reactions (spring) (3 hr)
Organic synthetic methodologies and important synthetic reactions emphasizing recently discovered reactions of preparative value. Protection/deprotection strategies, peptide synthesis.
Prerequisites: Instructor approval

CHM 598: Special Topics in Organic Chemistry (fall) (3 hr)
Two topics selected from and rotating among the following are taught per semester: NMR spectroscopic techniques as applied to organic problems, medicinal chemistry, bioorganic chemistry, organic photochemistry, and supramolecular chemistry.
Prerequisites: Instructor approval
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Graduate Courses in Physical Chemistry

CHM 541: Advanced Thermodynamics (fall) (3 hr)
Equilibrium thermodynamics applied to materials, and more general chemical and biological systems, with an introduction to statistical thermodynamics. Chemical reactions, equations of state, phase equilibria and stability in multicomponent systems. Thermodynamics of electrolytes, aqueous solutions and electrochemistry. Cross-listed with SEM 598.
Prerequisites: CHM 345 and 346, or equivalent

CHM 543: Computational Chemistry (fall semester, alternates with CHM 546) (3 hr)
This course was developed to provide basic concepts and practical experience in computational chemistry as applied to molecules and solids. Theoretical background and applied aspects of electronic structure methods/simulation, and related visualization techniques, will be systematically covered. A weekly laboratory session will provide hands-on experience with state-of-the-art molecular and solid-state simulation/visualization packages, with an emphasis on their reliability, predictive capability and practical limitations.
Prerequisites: CHM 345 and/or CHM 545

CHM 545: Quantum Chemistry (fall) (3 hr)
Formal presentation of Quantum Mechanics using both the Schrodinger wave equation and Heisenberg matrix formulations. Vibrational and rotational states of polyatomic molecules, angular momentum theory, and raising and lowering operators. Electronic structure of atoms and molecules, restricted and unrestricted Hartree-Fock theory, electron correlation methods and molecular orbital theory. Introduction to group theory. Quantum mechanical selection rules in spectroscopy.
Prerequisites: CHM 346 or equivalent

CHM 546: Molecular Spectroscopy and Group Theory (fall semester, alternates with CHM 543) (3 hr)
Applications of quantum mechanics to the general problem of the interaction of light with molecular systems. Angular momentum theory developed from a group theoretical basis and applied to the eigenvalue problem for molecules. Symmetry classifications of the vibrational and electronic states of polyatomic molecules in both a molecular symmetry group and the more conventional point group schemes. Overview of the formalism and experimental techniques in different resonant-based spectroscopies.
Prerequisites: CHM 545

CHM 547: Statistical Thermodynamics (currently offered under CHM598; alternates spring semesters with CHM 548) (3 hr)
Connection between the atomic and molecular behavior of chemical and biological systems with its equilibrium and nonequilibrium thermodynamic properties using the statistical developments of Boltzmann and Gibbs. Ensembles, partition functions, statistical distribution functions and their connection to thermodynamic properties. Calculation of the thermal properties of gases, liquids and solids from quantum mechanical and classical descriptions of atomistic behavior. Introduction to time-correlation function formalism. Basics of molecular dynamics simulations and Monte Carlo calculations. Applications to phase transformations, critical phenomena, macromolecules and protein folding.
Prerequisites: CHM 345 and 346

CHM 548: Chemical Kinetics and Dynamics (alternates spring semesters with CHM 547 (3 hr)
This course addresses time dependent processes in Chemistry and Physical Chemistry at the graduate level. Typical topics will be kinetics of chemical reactions, resonance processes, charge and particle diffusion in ordered and disordered materials, and the wide body of relaxation and transport processes (i.e., the time-dependent recovery of systems to equilibrium). Time-correlation function formalism and the fluctuation dissipation theorem. Relaxation phenomena and light scattering. Both the theoretical and the experimental aspects of these phenomena will be covered, including how the dynamics depend on temperature and material properties.
Prerequisites: CHM 345 and 346

CHM 549: Advanced Topics in Physical Chemistry (3 hr)
Various advanced and special topics in physical chemistry. Previous topics have included: supercooled liquids and the glass transition, vibrational spectroscopy of solids, and phase transitions and critical phenomena. May be retaken for credit.
Prerequisites: CHM 345 and/or CHM 545

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Graduate Courses in Inorganic and Materials Chemistry

CHM 553: Advanced Inorganic Chemistry (fall) (3 hr)
Principles of modern inorganic chemistry and their application over the entire periodic system. The objective of this course is to provide a foundation in the basic physical principles that are important to inorganic and materials chemists. A group theoretical approach to bonding theory will be related to electronic structure, spectroscopy, and magnetism, as well as to periodic trends in chemical reactivity. Fundamentals of organometallic chemistry, and main group and transition element chemistry will be emphasized and applications to materials, catalysis, and bioinorganic chemistry will reinforce these concepts.
Prerequisites: CHM 345, 346, and 453, or equivalents

CHM 552: Advanced Inorganic and Materials Synthesis Laboratory (spring) (2 hr)
Preparation and characterization of inorganic compounds and materials, emphasizing advanced methods and techniques. This laboratory course will cover advanced synthetic methodology of importance in inorganic and materials chemistry. Schlenk-line and glovebox manipulations, solvothermal syntheses, and gas-phase reactions. Applications in coordination, solid state, and organometallic chemistry. Spectroscopic, magnetic, and electrochemical characterization methods. This course meets together with CHM 452.
Prerequisites: CHM 345 and CHM 453 (may be taken concurrently). Limited enrollment, instructor approval required.

CHM 571: Structure, Bonding, and Symmetry in Materials (fall) (3 hr)
Principles of structural and materials chemistry, with an emphasis on crystal chemistry. This course covers the symmetry of periodic structures (space groups) and their use in description of crystal structures. The basic inorganic crystal structures are introduced and described in terms of nets and sphere packings. Factors determining bond lengths and coordination geometries are discussed. The role of structure in determining physical (magnetic, dielectric, etc) properties is discussed. This course meets together with CHM 471.
Prerequisites:

CHM 572: Electronic Structure and Properties of Materials (currently offered under CHM598; spring semesters, first offered spring 2004) (3 hr)
Physical and chemical properties of solid state materials and the relationship to electronic structure. The course emphasizes the understanding of materials properties from a chemical point of view. A major course objective is to enhance students' capability in rational design of new functional materials ranging from nanoscale to bulk materials. The covered subjects include the following: Chemical bonding in solids. Electronic band theory. Metals, semiconductors and insulators. Structural and electronic phase transitions. Magnetic interactions and magnetic materials. Nanostructured materials. Intermolecular forces. CHM 572 may be taken before CHM 571.
Prerequisites: CHM 345 or equivalent.

CHM 575: Advanced Materials Characterization (Proposed. Not yet approved) (fall) (3 hr; 2 hours lecture + 3 hours lab per week)
Prerequisites: Graduate level Quantum Chemistry

CHM 576: Simulation of Spectroscopic Properties of Materials (Proposed. Not yet approved) (spring) (3 hr; 2 hours lecture + 4 hours lab per week)
A practical course in interpreting and simulating spectroscopic data on materials. Electron and X-ray diffration, infra-red and Raman vibrational spectra, NMR, EELS, EXAFS, XPS, and optical reflectivity.
Prerequisites: Graduate level Quantum Chemistry; instructor approval

CHM 526: Crystal Structure Analysis (Proposed. Not yet approved) (1-2 hr)
Methods of determining crystal structures with emphasis on practical aspects of single-crystal and powder diffraction methods using X-rays, electrons and neutrons. Strategies for crystal growth, sample preparation and mounting, data collection, and methods for structure refinement from diffraction data.
Prerequisites: CHM 345 and 346 or equivalent.

CHM 579: Special Topics in Inorganic and Materials Chemistry (3 hr)
Various advanced and special topics in inorganic and materials chemistry. May be repeated for credit.
Prerequisites:

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Graduate Courses in Biochemistry

BCH 561: Advanced Topics in Biochemistry (spring) (3 hr)
Topics selected from emerging areas of biochemistry based primarily on current literature. Subject areas may include: genomics, proteomics, bioinformatics, protein-DNA interactions, molecular basis of diseases and aging, in vivo protein folding and misfolding, cellular trafficking and protein transport, structure and function of membrane proteins. Part of the graduate Biochemistry core curriculum.
Prerequisites: BCH 462

BCH 563: Biophysical Chemistry (fall) (3 hr)
Structure, thermodynamics and folding of proteins and nucleic acids. Principles of biophysical methods used to study biological macromolecules. Selected topics may include: Structural classification of proteins, non-covalent interactions, thermodynamic parameters, protein stability, dominant forces in protein folding, structural principles of DNA, RNA folds and ribozymes, macromolecular crowding. Selected methods may include macromolecular x-ray crystallography, hydrogen exchange experiments, calorimetry, single molecule fluorescence, atomic force microscopy, and cryo-electron microscopy. Part of the graduate Biochemistry core curriculum.
Prerequisites: BCH 462, CHM 346

BCH 568: Molecular Mechanisms of Photosynthesis (alternate years) (3 hr)
Introduction to the underlying principles and current understanding of the process of photosynthesis. Structure and function of photosynthetic complexes. Mechanism of energy conversion in plants, bacteria, and model systems. Specific topics may include: photosynthetic organisms, gene regulation, evolution, membrane organization, biosynthesis and assembly, pigment and antenna types, electron transfer reactions, proton pumps, cytochromes, photosystem I and II, ATP synthase, carbon dioxide metabolism, and model systems of photosynthesis. Cross-listed as PLB 558. Credit is allowed for only BCH 568 or PLB 558.
Prerequisites: Instructor approval.

CHM 598: Biological Photochemistry (selected semesters) (3 hr)
Photochemistry and photophysics of pigment molecules. Emphasis is placed on photobiological processes. Topics may include: dipole transition moment, electronic structure and relaxation of excited states, time-resolved spectroscopy, excimers, charge-transfer complexes and exciplexes, photoinduced energy and electron transfer, photoisomerization in vision, photochemistry of DNA.
Prerequisites: Instructor approval.

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Graduate Courses in Geochemistry

CHM 583: Phase Equilibria and Geochemical Systems (selected semesters) (3 hr)
Natural reactions at high temperatures and pressures; silicate, sulfide, and oxide equilibria.

CHM 582: Topics in Geochemistry and Cosmochemistry (selected semesters) (3 hr)
Topics of current interest in Geochemistry and Cosmochemistry. Sampling and interpretation of data concerning phase equilibria, element distribution, organic compounds, aqueous solutions, meteorites, the Earth, and other planets.

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Additional Graduate Course Offerings in Chemistry and Biochemistry

CHM 593: Applied Project -- Scientific Glassblowing  (spring) (1 hr)
Hands-on course in scientific glassblowing covers all basic seals in glassblowing, and vacuum line technique. By the end of the semester, you will be able to make your own cold traps, condensers, distillation apparatus, and make repairs to your existing glassware. Space in the class is limited to 8 students. You must sign up for the course with Mike or Christi in the Glass Shop.
Prerequisites: none

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