May 02, 2024  
2015-2016 Catalog 
    
2015-2016 Catalog [ARCHIVED CATALOG]

Course Descriptions


UNDERGRADUATE COURSES

Lower Division Courses numbered 1–99 are designed primarily for freshmen and sophomores but are open to all students for lower division credit. (Graduate students requesting to enroll in lower-division undergraduate courses will not receive unit credit nor will the course fulfill degree requirements.) Upper Division Courses courses numbered 100–199 are open to all students who have met the necessary prerequisites as indicated in the catalog course description. Preparation should generally include completion of one lower division course in the given subject or completion of two years of college work.

GRADUATE COURSES

Courses numbered 200–299 are open to graduate students. (Undergraduate students must obtain the signature of the instructor, School Dean, and the Dean of Graduate Studies. Graduate level units will count towards the required 120 units for graduation; however students are urged to meet with their academic advisor in order to determine if graduate course units may be used to fulfill a graduation requirement.)

CROSS-LISTED/CONJOINED COURSES

Cross-listed Courses are the same course offered under different course subjects at the same level (either undergraduate or graduate) that share the same meeting time, requirements, units, etc. Conjoined Courses are the same course but one is undergraduate and one is graduate.

COREQUISITE COURSE

A corequisite course is a course that must be taken at the same time as another course.

PREREQUISITES

Prerequisites for courses should be followed carefully; the responsibility for meeting these requirements rests on the student. If you can demonstrate that your preparation is equivalent to that specified by the prerequisites, the instructor may waive these requirements for you. The instructor also may request that a student who has not completed the prerequisites be dropped from the course. If the prerequisite for a course is not satisfied, students must obtain the approval of the instructor (or school designee) of the course they wish to take.

For all undergraduate courses a “C-” or better grade is required for a course to be used as a prerequisite for another course. If a course was taken for a “P/NP” grade then a “P” grade is required.

For all graduate courses a “B” or better grade is required for a course to be used as a prerequisite for another course. If a course was taken for a “S/U” grade then a “S” grade is required.

FOREIGN LANGUAGES

No credit is allowed for completing a less advanced course after successful completion (C-or better) of a more advanced course in the foreign languages. This applies only to lower division foreign language courses, not upper division courses. 

GRADING OPTIONS

Unless otherwise stated in the course description, each course is letter graded with a P/NP or S/U option (unless required for your major or graduate program). The policy regarding Grading Options , can be found in an alternate section of the catalog.

More information about Course Substitutions  and Course Materials and Services Fees  can be found in alternate areas of the catalog.

 

Chemistry

  
  • Syllabus

    CHEM 001: Preparatory Chemistry


    [3 units]

    Preparation for general chemistry. Units of measurement, dimensional analysis, significant figures; elementary concepts of volume, mass, force, pressure, energy, density, temperature, heat, work; fundamentals of atomic and molecular structure; the mole concept; acids and bases; stoichiometry; properties of the states of matter; gas laws; solutions, concentrations. NOTE: Chemistry 1 satisfies no requirements other than contribution to the 120 units required for graduation. Designed for students who need additional help prior to enrollment in General Chemistry.

    Course cannot be taken after successfully completing CHEM 002 . Discussion included.


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  • Syllabus

    CHEM 002: General Chemistry I


    [4 units]

    First semester of a two-semester general chemistry sequence. Stoichiometric calculations, types of chemical reactions, properties of gases, thermochemistry, introduction to chemical equilibrium, basic atomic structure and atomic orbital theory, periodic properties, and chemical bonding. The concepts and quantitative skills introduced in lecture are reinforced by a laboratory section.

    Prerequisite: CHEM 001  or combined score of 40 or above on Chemistry and Competency Exam or equivalent. Laboratory included. Cross-Listed with CHEM 002H .


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  • Syllabus

    CHEM 002H: Honors General Chemistry I


    [4 units]

    First semester of a two-semester honors general chemistry sequence Stoichiometric calculations, types of chemical reactions, properties of gases, thermochemistry, introduction to chemical equilibrium, basic atomic structure and atomic orbital theory, periodic properties, and chemical bonding. The concepts and quantitative skills introduced in lecture are reinforced by a laboratory section.

    Prerequisite: (MATH 021 , which may be taken concurrently, or equivalent score on the Competency Exam) and (CHEM 001 , must be completed with B or better, or combined score of 45 or above on the Chemistry and Math Placement Exam or equivalent). Normal Letter Grade only. Laboratory included. Cross-Listed with CHEM 002 .


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  • Syllabus

    CHEM 008: Principles of Organic Chemistry


    [3 units]

    Molecular shapes and charge distributions; resonance; electron delocalization; organic structures, nomenclature and isomerism, stereochemistry; optical activity; organic reactions; IR spectroscopy; intermolecular forces. Rational approaches to organic mechanism are emphasized.

    Prerequisite: (CHEM 002  or CHEM 002H , must be completed with A- or better) or (CHEM 010  or CHEM 010H ) and CHEM 008L , which may be taken concurrently. Normal Letter Grade only. Laboratory included. Cross-Listed with CHEM 008H .


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  • Syllabus

    CHEM 008H: Honors Principles of Organic Chemistry


    [4 units]

    Molecular shapes and charge distributions; resonance; electron delocalization; organic structures, nomenclature and isomerism, stereochemistry; optical activity; organic reactions; IR spectroscopy; intermolecular forces. Rational approaches to organic mechanism are emphasized.

    Prerequisite: (CHEM 010 , must be completed with A- or better) or (CHEM 010H , must be completed with B- or better). Normal Letter Grade only. Laboratory included. Cross-Listed with CHEM 008 , CHEM 008L .


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  • CHEM 008L: Principles of Organic Chemistry Lab


    [1 unit]

    Molecular shapes and charge distributions; resonance; electron delocalization; organic structures, nomenclature and isomerism, stereochemistry; optical activity; organic reactions; IR spectroscopy; intermolecular forces. Rational approaches to organic mechanism are emphasized.

    Prerequisite: (CHEM 002 , must be completed with A- or better, or CHEM 002H , must be completed with A- or better, or CHEM 010  or CHEM 010H ) and CHEM 008 , which may be taken concurrently. Normal Letter Grade only. Laboratory included. Cross-Listed with CHEM 008H .


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  • Syllabus

    CHEM 010: General Chemistry II


    [4 units]

    Second semester of a two-semester general chemistry sequence. Chemical kinetics, acid-base, ionic, and gaseous equilibria, chemical thermodynamics, electrochemistry, main-group and transition-metal chemistry, nuclear chemistry. The concepts and quantitative skills introduced in lecture are reinforced by a laboratory section.

    Prerequisite: (CHEM 002  or CHEM 002H ) and (MATH 011  or MATH 021 , which may be taken concurrently, or equivalent score on the Competency Exam). Laboratory included. Cross-Listed with CHEM 010H .


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  • CHEM 010H: Honors General Chemistry II


    [4 units]

    Second semester of a two-semester general chemistry sequence. Addresses properties of gases, chemical thermodynamics, electrochemistry, chemical kinetics, quantum mechanics and spectroscopy, properties of solids and liquids, and nuclear chemistry. The concepts and quantitative skills introduced in lecture are reinforced by a laboratory section.

    Prerequisite: (CHEM 002 , must be completed with A- or better, or CHEM 002H , must be completed with B- or better) and (MATH 012 , which may be taken concurrently, or MATH 022 , which may be taken concurrently, or equivalent score on the Competency Exam). Normal Letter Grade only. Laboratory included. Cross-Listed with CHEM 010 .


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  • CHEM 090X: Freshman Seminar in Chemistry


    [1 unit]

    Weekly meetings to discuss chemical research and current issues in the chemical sciences, including exploration of career opportunities.

    Pass/Fail only.


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  • CHEM 095: Lower Division Undergraduate Research


    [1-5 units]

    Laboratory, field, theoretical, and/or computational research under the supervision of a faculty member on a topic of mutual interest. A written report is required.

    Permission of instructor required. Grading option is instructor preference. Course may be repeated for credit. Laboratory included.


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  • CHEM 098: Lower Division Directed Group Study


    [1-5 units]

    Permission of instructor required. Pass/Fail only. Course may be repeated for credit.


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  • CHEM 099: Lower Division Individual Study


    [1-5 units]

    Permission of instructor required. Pass/Fail only. Course may be repeated for credit.


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  • Syllabus

    CHEM 100: Organic Synthesis and Mechanism


    [3 units]

    Reactions, syntheses, purification and characterization of all of the major classes of organic compounds. Includes standard organic reaction mechanisms and bioorganic mechanism. A retrosynthetic approach to synthetic design is emphasized.

    Prerequisite: (CHEM 008  or CHEM 008H ) and (CHEM 010  or CHEM 010H ).


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  • CHEM 100L: Organic Chemistry Laboratory


    [1 unit]

    Laboratory experiments in synthetic methods and chemical and spectroscopic characterization of organic compounds. Emphasis is on microscale techniques.

    Prerequisite: CHEM 100 , which may be taken concurrently. Not open to major(s): Chemical Sciences. Laboratory included.


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  • Syllabus

    CHEM 101L: Advanced Synthetic Laboratory


    [2 units]

    Laboratory experiments in synthetic methods and chemical and spectroscopic characterization of organic and inorganic compounds. Emphasis is on microscale techniques.

    Prerequisite: CHEM 100 , which may be taken concurrently. Open only to major(s): Chemical Sciences. Normal Letter Grade only. Laboratory included.


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  • Syllabus

    CHEM 112: Quantum Chemistry and Spectroscopy


    [3 units]

    Theory and practical application of molecular quantum mechanics. Schrodinger equation and matrix representations of quantum mechanics; simple exactly solvable model problems; calculation of observable properties; vibrational and electronic wave functions; approximation methods; quantum mechanics of spectroscopy.

    Prerequisite: (CHEM 010  or CHEM 010H ) and MATH 024  and (PHYS 009  or PHYS 009H ). Normal Letter Grade only.


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  • Syllabus

    CHEM 115: Instrumental Analysis and Bioanalytical Chemistry


    [3 units]

    Spectroscopic, electrochemical, and separation methods of chemical analysis including bioanalytical techniques.

    Prerequisite: CHEM 112 , which may be taken concurrently.


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  • CHEM 122: Advanced Biochemistry and Molecular Biology


    [4 units]

    Mechanisms of amino acid, nucleic acid, and lipid metabolism plus advanced mechanisms of gene expression, signal transduction, and regulation of gene expression.

    Prerequisite: BIO 101  or CHEM 111 . Normal Letter Grade only. Discussion, Laboratory included. Cross-Listed with BIO 102 .


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  • CHEM 130: Organic Spectroscopy and Computation


    [3 units]

    Modern methods and tools employed for the determination of organic molecular structure including NMR [1D and 2D FT], IR, and UV spectroscopy. Applications of quantum mechanical concepts and methods to understand and predict organic structures and reactivities. Computational modeling methods, including force field and quantum mechanical computer calculations.

    Prerequisite: CHEM 100  and CHEM 112 . Laboratory included.


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  • CHEM 131: Molecular Spectroscopy


    [3 units]

    Time-dependent quantum mechanics; interaction of radiation with matter; electronic spectra of atoms and molecules; vibrational, rotational, and Raman spectra; magnetic resonance spectroscopy; X-ray, neutron, and electron diffraction.

    Prerequisite: CHEM 112 . Normal Letter Grade only.


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  • CHEM 133: Biophysical Chemistry


    [3 units]

    Biochemical kinetics, solution thermodynamics of biochemical systems, multiple equilibria, hydrodynamics, energy levels, spectroscopy, and bonding. Three-dimensional structure of proteins, forces that stabilize protein structures, protein folding, prediction of protein structure from sequence. Three-dimensional structure of DNA and RNA, sequence-specific recognition of DNA and RNA, RNA-catalyzed processes.

    Prerequisite: CHEM 113  and (CHEM 111  or BIO 101 ). Normal Letter Grade only.


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  • CHEM 140: Nanoscale Materials Chemistry


    [3 units]

    Introduction to the properties of matter on size scales intermediate between atoms or molecules and bulk matter, with emphasis on metallic and semiconductor nanoparticles. Synthesis, characterization, physical and chemical properties, and applications of these materials.

    Prerequisite: CHEM 100  and CHEM 113  and CHEM 120 , all of which may be taken concurrently. Normal Letter Grade only.


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  • CHEM 150: Inorganic and Materials Chemistry Laboratory


    [2 units]

    Laboratory experiments focusing on the synthesis and characterization of inorganic compounds.

    Prerequisite: CHEM 120 , which may be taken concurrently. Normal Letter Grade only. Laboratory included.


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  • CHEM 153: Physical Chemistry Laboratory


    [2 units]

    Introduces students to modern laboratory instrumentation and experimental techniques in physical chemistry. It consists of a number of experiments that use different techniques to explore fundamental concepts in spectroscopy, kinetics, and chemical thermodynamics.

    Prerequisite: CHEM 112 , which may be taken concurrently. Normal Letter Grade only. Laboratory included.


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  • Syllabus

    CHEM 155: Instrumental Analysis Laboratory


    [2 units]

    Introduces students to the major concepts of instrumental analysis and to some of the instrumental techniques most commonly used in analytical and bioanalytical chemistry. It emphasizes the use of modern, commercial instrumentation to perform quantitative and qualitative analyses of the physical properties and chemical composition of samples.

    Prerequisite: CHEM 115 , which may be taken concurrently. Normal Letter Grade only. Laboratory included.


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  • Syllabus

    CHEM 160: Introduction to Scientific Computing for Chemists


    [3 units]

    Teaches the tools and principles of scientific computing, covering the Linux operating system, shell scripting, data analysis using R, and scientific programming with an emphasis on data analysis and simulations relevant to chemistry. Involves interactive lecture/laboratory sessions where students gain experience doing scientific computing on local and remote computers.

    Prerequisite: MATH 022  or MATH 032 . Open only to standing(s): Junior, Senior. Normal Letter Grade only. Laboratory included. Conjoined with CHEM 260 .


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  • CHEM 181: Introduction to Biomolecular Simulation


    [4 units]

    Uses lectures and laboratory exercises to teach the principles and practice of molecular modeling with a focus on simulations of biological macromolecules. Topics to be covered include classical molecular dynamics, molecular mechanics, docking, and visualization. The laboratories will involve simulations of systems including water, DNA, and proteins.

    Prerequisite: BIO 001  and (CHEM 008  or CHEM 008H ) and (MATH 011  or MATH 021  or equivalent score on the Competency Exam) and (PHYS 008  or PHYS 008H  or PHYS 018 ) and (MATH 015  or CSE 020  or BIO 180 ). Discussion, Laboratory included. Cross-Listed with BIO 181 . Conjoined with CHEM 281 , QSB 281 .


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  • CHEM 190: Advanced Topics in Chemistry


    [3 units]

    In-depth treatment of a timely advanced topic in chemistry as selected by the faculty. More than one section covering different topics may be offered.

    Permission of instructor required. Normal Letter Grade only. Course may be repeated for credit.


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  • CHEM 194: Ethics and Communication in Chemistry


    [1 unit]

    Addresses two key competencies that all professional chemists need: scientific ethics and oral communication skills. Scientific and professional ethics are taught through lectures, readings, and discussion of case studies. Oral communication skills are addressed through lectures and by having each student present a scientific seminar.

    Open only to major(s): Chemical Sciences. Open only to standing(s): Senior. Pass/Fail only. Discussion included.


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  • CHEM 195: Upper Division Undergraduate Research


    [1-5 units]

    Laboratory, field, theoretical, and/or computational research under the supervision of a faculty member on a topic of mutual interest. A written report is required.

    Permission of instructor required. Grading option is instructor preference. Course may be repeated for credit. Laboratory included.


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  • CHEM 198: Upper Division Directed Group Study


    [1-5 units]

    Permission of instructor required. Pass/Fail only. Course may be repeated for credit.


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  • CHEM 199: Upper Division Individual Study


    [1-5 units]

    Permission of instructor required. Pass/Fail only. Course may be repeated for credit.


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  • Syllabus

    CHEM 200: Advanced Organic Synthesis


    [3 units]

    Logical approaches to designing syntheses of target organic compounds. Introduction to retrosynthetic analyses and background on the reactions needed to achieve common syntheses; protecting groups and stereoselective methodologies. Classic syntheses are discussed in the context of modern methods. Introduction to literature search tools, a practical estimate of the reliability of published protocols, and references on chemical purification.

    Prerequisite: One year of organic chemistry. Normal Letter Grade only.


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  • CHEM 201: Organic and Organometallic Reaction Mechanisms


    [3 units]

    Thermodynamics, statistical mechanics, and molecular orbital theory are used to explain reactivity, product distributions, the stability of intermediates, and transition state structure. Elements of computational chemistry, kinetic methods of interrogation, linear free energy relationships, kinetic isotope effects, and other methods for empirically constructing plausible reaction mechanisms.

    Prerequisite: One year of organic chemistry and one year of physical chemistry. Normal Letter Grade only.


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  • CHEM 202: Bioorganic Chemistry


    [3 units]

    The molecular basis of biological processes. Methods by which enzymes catalyze organic reactions; experimental methods by which the mechanisms of enzyme-catalyzed reactions are elucidated; chemistry of disease states and drug action.

    Prerequisite: One year of organic chemistry and one semester of biochemistry. Normal Letter Grade only.


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  • CHEM 210: Reactions and Reactivity of Organometallic Chemistry


    [3 units]

    Introduction to the structure and reactivity of organometallic complexes. Emphasis on how structural changes affect the reactivity patterns of catalytic reactions using transition metal catalysts. Strong focus on analyzing and predicting the mechanism of organometallic reactions.

    Normal Letter Grade only.


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  • Syllabus

    CHEM 212: Molecular and Solid State Quantum Chemistry


    [3 units]

    Theory and practical application of molecular quantum mechanics. Schrödinger equation and matrix representations of quantum mechanics; simple exactly solvable model problems; calculation of observable properties; vibrational and electronic wave functions; approximation methods; quantum mechanics of spectroscopy. Graduate requirements include computer laboratory and a computational project.

    Normal Letter Grade only.


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  • CHEM 214: Statistical Thermodynamics


    [3 units]

    Includes a treatment of statistical mechanical ensembles, applications of equilibrium statistical mechanics to interacting and noninteracting systems and the connection to classical thermodynamics, numerical simulation techniques, and an introduction to topics in nonequilibrium statistical mechanics.

    Normal Letter Grade only.


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  • CHEM 215: Chemical Kinetics


    [3 units]

    The rates and mechanisms of elementary reactions, unimolecular reactions, reactions in the gas phase, in solutions and on surfaces. Energy and charge transfer phenomenon. Kinetics of surface and enzyme catalysis. Kinetic modeling of multistep reactions.

    Prerequisite: (CHEM 112  and CHEM 113 ) or graduate standing in Chemistry or Physics. Normal Letter Grade only.


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  • CHEM 225: Molecular Electronic Structure


    [3 units]

    Modern theoretical methods, algorithms, and computational tools for understanding the energetics and properties of molecules. This includes molecular mechanics, semi-empirical methods, but with a focus on ab initio based approaches. Electronic structure methods such as Hartree-Fock, density functional theory, couples-cluster, and configuration interaction will be introduced.

    Prerequisite: CHEM 212 . Open only to major(s): Applied Mathematics, Bio Engineering and Small Scale Technology, Chemistry and Chemical Biology, Physics, Quantitative and Systems Biology.


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  • Syllabus

    CHEM 231: Molecular Spectroscopy


    [3 units]

    Time-dependent quantum mechanics; interaction of radiation with matter; electronic spectra of atoms and molecules; vibrational, rotational, and Raman spectra; magnetic resonance spectroscopy; X-ray, neutron, and electron diffraction. Modern experimental and theoretical methods in spectroscopy. Graduate requirements include a term paper critically evaluating a recent technique in spectroscopy.

    Prerequisite: CHEM 212 .


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  • Syllabus

    CHEM 260: Introduction to Scientific Computing


    [3 units]

    Teaches the tools and principles of scientific computing, covering the Linux operating system, programming tools and editors, shell scripting, data analysis using R, and scientific programming using interpreted and compiled languages. Involves interactive lecture/laboratory sessions where students will gain experience doing scientific computing on both local and remote computers.

    Normal Letter Grade only. Conjoined with CHEM 160 .


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  • CHEM 270: Academic Writing in Graduate Studies


    [3 units]

    Designed to increase the writing proficiency of graduate students, with a focus on strategies for reading critically, organizing and developing thoughts, choosing appropriate vocabulary, and generating and revising writing in a given scientific field. Topics address scientific disciplines. Projects may include writing abstracts, research reports, literature reviews, posters, and grant proposals.

    Open only to major(s): Applied Mathematics, Chemistry and Chemical Biology, Physics, Quantitative and Systems Biology. Cross-Listed with MATH 270 , PHYS 270 , QSB 270 .


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  • CHEM 281: Molecular Dynamics and Biomolecular Simulation


    [4 units]

    Uses lectures and laboratory exercises to teach the practice of biomolecular modeling. Topics include classical molecular dynamics, molecular mechanics and visualization. The laboratories involve simulations of systems including water, DNA and proteins. The course includes two projects for the students to apply molecular simulation to their graduate research.

    Normal Letter Grade only. Discussion, Laboratory included. Cross-Listed with QSB 281 . Conjoined with BIO 181 , CHEM 181 .


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  • CHEM 290: Current Topics in Physics and Chemistry


    [3 units]

    Exploration of current research directions, problems, and techniques in molecular and materials chemistry, physics, and engineering. Course format emphasizes student-led presentation, analysis, and discussion of reading assignments from the current and recent scientific literature. Topics are determined by the instructor and change each semester.

    Course may be repeated for credit.


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  • CHEM 291: Physics and Chemistry Seminar


    [1 unit]

    Graduate seminar in physics and chemistry.

    Satisfactory/Unsatisfactory only. Course may be repeated for credit. Cross-Listed with PHYS 291 .


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  • CHEM 295: Graduate Research


    [1-15 units]

    Supervised research.

    Permission of instructor required. Satisfactory/Unsatisfactory only. Course may be repeated for credit.


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  • CHEM 298: Directed Group Study


    [1-6 units]

    Group project under faculty supervision.

    Permission of instructor required. Satisfactory/Unsatisfactory only. Course may be repeated for credit.


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  • CHEM 299: Directed Independent Study


    [1-6 units]

    Independent project under faculty supervision.

    Permission of instructor required. Satisfactory/Unsatisfactory only. Course may be repeated for credit. Laboratory included.


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