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Undergraduate Calendar
Winter 2019

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CHEMISTRY AND BIOCHEMISTRY: COURSES

All courses listed will not necessarily be offered each year.

The prerequisite of all 200-level courses, unless otherwise indicated, will be both 59-140 and 59-141.

The prerequisite for all 400-level courses will be the consent of the instructor, except as noted.

59-100. Introduction to Chemistry
This course stresses fundamental principles of chemistry, and is intended for students lacking SCH4U or equivalent, or requiring additional preparation for 59-140 (General Chemistry I), 59-110 (Topics in General Chemistry) and 59-191 (Organic and Biological Chemistry for Health Sciences) . Topics include: basic atomic theory, the periodic table, stoichiometry, properties of gases and liquids, acid-base concepts and chemical equilibria, organic and polymer chemistry. This course can serve as a prerequisite for 59-140, but may not be taken for credit in any Science program. (4 lecture hours and 2 tutorial hours per week; or 3 lecture hours and 1 tutorial hour) (Students who first completed 59-140 may not subsequently enrol in 59-100.)

59-110. Topics In General Chemistry
An introduction to selected topics in modern chemistry for engineering: atomic and molecular structure, properties of matter and the periodic table, macroscopic chemical systems, stoichiometry, properties of the equilibrium state and applications to thermochemistry and electrochemistry. (Prerequisite: Grade 12“U” Chemistry or equivalent.) (3 lecture, 3 laboratory hours a week.)

59-140. General Chemistry I
Introductory concepts in chemistry, including reactions of atoms, ions, and molecules, solution stoichiometry, thermochemistry, electronic structure of atoms, basic chemical bonding and molecular geometry, periodic properties of the elements, and the theory of gases. (Prerequisite: Grade 12“U” Chemistry or equivalent (59-100), or consent of the instructor.) (3 lecture, 3 laboratory/tutorial hours a week.)

59-141. General Chemistry II
A continuation of 59-140 covering topics such as chemical kinetics, general equilibrium theory, acid-base theory, chemical thermodynamics, and introduction to organic chemistry. (Prerequisite: 59-140.) (3 lecture, 3 laboratory/tutorial hours a week.)

59-191. Organic and Biological Chemistry for Health Sciences
A course primarily intended for students in the Collaborative Four-Year B.Sc.N Program. The subject matter includes a survey of organic functional groups, the organic chemistry of biomolecules, and a survey of the major metabolic pathways. (Prerequisite: Grade 12“U” Chemistry or equivalent.) (Not open to students in any Science program. May not be used for credit in any Science program.) (2 lecture hours, 1 tutorial hour a week.)

59-201. Chemistry in the Marketplace
The basic notions of chemistry will be introduced and discussed in a qualitative manner with a view to understanding chemistry and materials encountered in everyday life. The course will provide an appreciation for the ubiquitous nature and importance of chemicals and chemical processes. Discussion will include a variety of topics such as chemistry in the home, plastics, drugs, cosmetics, biotechnology, chemistry and computer technology, nuclear power and pollution. The course is intended for students with no formal background in chemistry. (Not open to first-year students or students in any Science program. May not be used for credit in any Science program.) (2 lecture hours a week.)

59-220. Analytical Chemistry
Fundamental chemical principles and theory that are important to classical, or "wet" analytical chemistry are presented, and illustrated using practical applications. The topics covered in this course include aqueous-solution chemistry, equilibria in complex systems, electrolytes, and titrimetric methods of analysis (gravimetric, precipitation, acid-base, complexiometric and reduction-oxidation). Theory and applications of electrochemical techniques include potentiometric and amperometric titrations. (Prerequisite: 59-141 or consent of instructor.) (3 lecture hours, 3 laboratory hours a week.) (Credit cannot be obtained for both 59-220 and 59-320.)

59-230. Introductory Organic Chemistry
Introduction to organic chemistry, with emphasis on structure, stereochemistry, and reactions of aliphatic and alicyclic compounds and their functionalized derivatives. (Prerequisites: 59-140 and 59-141, or 59-110.) (Antirequisite: 59-232.) (3 lecture, 3 laboratory hours a week.)

59-232. Introductory Organic Chemistry
The same as 59-230 but without the laboratory. (Prerequisites: 59-140 and 59-141.) (Antirequisite: 59-230.) (3 lecture hours a week.) (Not available for credit to students majoring in Chemistry, Biochemistry, or Biological Sciences or students minoring in Chemistry or Biochemistry.)

59-234/CHEM-2340. Fundamentals of Organic Chemistry
This course is for students who want to take only one organic chemistry course in their studies and covers the very essentials of what is taught in 59-230, 59-235, and 59-331. It gives a general introduction to organic chemistry, with emphasis on molecular structure, stereochemistry, intermolecular interactions, physical properties of organic compounds, and the chemistry of important functional groups (halides, alcohols, thiols, amines, carboxylic acids, esters, amides and aromatic compounds). The course functions as a prerequisite for 59-261 (Organic Chemistry of Biomolecules) but not 59-235 (Introductory Organic Chemistry II). High scoring students may be admitted into 59-235 by the consent of the instructor. (Prerequisites: 59-141 or 59-110.) (Antirequisites: 59-230, 59-232, 59-236/Credit may be obtained for only one of 59-230, 59-232, 59-234, and 59-236.) (3 lecture, 3 laboratory hours a week.) (Not available for credit to students majoring in Honours Chemistry and Biochemistry programs.) (Credit cannot be obtained for both CHEM-2340 and 59-234).

59-235. Introductory Organic Chemistry II
A continuation of 59-230. Topics include the chemistry of nitrogen-containing compounds, aromatic chemistry and an introduction to spectroscopic methods. (Prerequisite: 59-230.) (2 lecture hours a week.)

59-236/CHEM-2341. Fundamentals of Organic Chemistry
The same as 59-234 but without the laboratory. (Prerequisites: 59-140 and 59-141.) (Antirequisite: 59-230, 59-232, 59-234/Credit may be obtained for only one of 59-230, 59-232, 59-234, and 59-236.) (3 lecture hours a week.) (Not available for credit to students majoring in Chemistry, Biochemistry, or Biological Sciences or students minoring in Chemistry or Biochemistry.) (Credit cannot be obtained for both CHEM-2341 and 59-236)

59-240. Introductory Physical Chemistry I
Properties of ideal and real gases, first and second laws of thermodynamics, physical transformations of substances, mixtures of substances and phase diagrams are applied to changes of state, chemical reactions and spontaneous processes. (Prerequisites: 59-141, 62-139 or 62-140, and 62-141.)(3 lecture hours/week, 3 lab hours or 1.5 tutorial hours/week or equivalent)

59-241. Introductory Physical Chemistry II
Physical and chemical equilibrium, equilibrium electrochemistry, molecular motion and collisions, chemical reaction rates, kinetics and introduction to statistical mechanics.(Prerequisite: 59-240) (3 lecture hours/week, 3 laboratory hours or 1.5 tutorial hours/week or equivalent.)

59-250. Introductory Inorganic Chemistry I
Introduction to inorganic chemistry. Topics include: the origin of trends in the periodic table, molecular symmetry, and chemical bonding (including ionic bonding and the molecular orbital and valence bond models for covalent bonding). These approaches will be used to explain the chemistry and properties of selected classes of main group compounds. Photoelectron, NMR, and vibrational spectroscopy are introduced as complementary tools in the examination of these molecular species. (Prerequisite: 59-141.) .(3 lecture hours/week, 1.5 tutorial hours/week.)

59-251. Introductory Inorganic Chemistry II
The coordination chemistry of transition metals will be discussed, with particular reference to the means of physical and spectroscopic characterization. Relevance of such compounds to bio-inorganic systems will also be discussed. (Prerequisite: 59-250.) (3 lecture hours/week, 3 laboratory hours or 1.5 tutorial hours/week or equivalent.)

59-261. Organic Chemistry of Biomolecules
An extension of the principles covered in 59-230 to the structure and properties of organic molecules of biological significance (i.e., proteins, nucleic acids and lipids). (Prerequisite: 59-230.) (3 lecture, 3 laboratory hours a week.)

59-263. Organic Chemistry of Biomolecules
The same as 59-261 but without the laboratory. (Prerequisite: 59-230 or 59-232 or consent of the department.) (3 lecture hours a week.) (Not available for credit to students majoring in Chemistry, Biochemistry, Biochemistry-Biotechnology, Biology-Biotechnology or Biological Sciences or students minoring in Chemistry or Biochemistry.) (59-263 may not be used as a pre-requisite for 59-362, 59-363, 59-365 or 59-380 nor as one of the eight additional Science courses at the 200 level or above for students majoring in General Science)

59-321. Principles of Instrumental Analysis
The fundamental principles of operation and practical application of modern chemical analytical instrumentation are presented. This course will focus on the acquisition and assessment of qualitative and quantitative data from synthetic, biochemical and natural materials using instruments and methods that describes the elemental, isotopic, and molecular composition and structure of matter. Topics covered in this course may include atomic and molecular absorption and emission (photoluminescence) spectroscopy, atomic and molecular mass spectroscopy, X-ray spectroscopy, vibrational spectroscopy, and separation methods such as gas and liquid chromatography. (Prerequisites for Chemistry/Biochemistry Majors: 59-220 or consent of instructor; Prerequisites for Earth and Environmental Science Majors: 66-224 or consent of instructor.)(3 lecture, 3 laboratory hours a week.) (Cross-listed with 66-320.)

59-330. Spectroscopic Structure Identification
Structure elucidation and the use of spectroscopic techniques in synthetic chemistry. The experimental and theoretical principles of mass spectrometry, UV/visible, infrared and nuclear magnetic resonance spectroscopy, with focus on applications of spectroscopic techniques to structure analysis. (Prerequisite: 59-235 or consent of instructor.) (3 lecture, 3 laboratory hours a week.)

59-331. Intermediate Organic Chemistry
The methods of organic synthesis and the reaction mechanisms involved. (Prerequisite: 59-235 or consent of instructor.) (3 lecture, 3 laboratory hours a week.)

59-332. Spectroscopic Structure Identification
The same as 59-330 but without the laboratory. Not available for credit to students minoring in Chemistry or Biochemistry.(Prerequisite: 59-235 or consent of instructor.) (3 lecture hours a week.)

59-333. Intermediate Organic Chemistry
The same as 59-331 but without the laboratory. Not available for credit to students minoring in Chemistry or Biochemistry.(Prerequisite: 59-235 or consent of instructor.) (3 lecture hours a week.)

59-340. Quantum Chemistry
Principles of quantum theory, origins of quantum mechanics, wave-particle duality, Schroedinger equation, Born interpretation of the wavefunction, the uncertainty principle, applications of quantum mechanics, atomic structure and spectra, molecular structure, molecular orbital theory, introduction to computational chemistry. (Prerequisite: 59-241.) (3 lecture, 3 laboratory hours per week.)

59-350. Organometallic Chemistry
This course provides an introduction to the organometallic chemistry of the transition metals. (Prerequisite: 59-251 or consent of instructor.) (3 lecture, 3 laboratory hours a week.)

59-351. Materials Chemistry
Modern topics in materials science and solid state chemistry are discussed with an emphasis on properties, applications, and methods of characterization. The areas covered will include biometric materials, nanoscale engineering, liquid crystals, semiconductors, superconductors, organic metals, ferromagnetism and the ferroelectric effect, non-linear optical materials, thermochromic solids, scanning tunneling microscopy, and atomic force microscopy. Emphasis on applications to biomaterials engineering. (Prerequisite: 59-251.) (3 lecture hours/week.)

59-362. Metabolism I
Catabolism and the generation of phosphate bond energy. Introduction to chemistry of life, principles of bioenergetics, glycolysis, glycogen breakdown, citric acid cycle, electron transport/oxidative phosphorylation, pentose phosphate pathway, fatty acid oxidation - ketone bodies, amino acid degradation energy metabolism. (Prerequisite: 59-261.) (3 lecture hours a week.)

59-363. Metabolism II
The utilization of phosphate bond energy will be illustrated by carbohydrate, fatty acid, nucleotide and lipid biosynthesis, hormonal (G-proteins) and metabolite regulation, biological membranes (structure and transport mechanisms) and contractile processes (muscle biochemistry). (Prerequisite: 59-362.) (2 lecture hours a week.)

59-365. Protein and Nucleic Acid Chemistry
The covalent and three dimensional structures of these macromolecules will be described in conjunction with study of the chemical and physical methods used in their purification and characterization. (Prerequisite: 59-261.) (2 lecture hours a week.)

59-380. Biotechnology Laboratory
This intensive laboratory course will primarily simulate the discovery and rapid characterization of genes and gene products. Laboratory experiments will include cutting edge biotechnology techniques and traditional biochemical and molecular biology methodology. For example, DNA/plasmid isolation, cloning, DNA sequencing and analysis, introduction to bioinformatics and microarray technology, characterization of cloned products, protein isolation and characterization, and determination of enzymatic catalysis and regulation will be used to study gene products on a genetic and protein level. Other topics include forensic genetics and plant biotechnology. (Prerequisites: 59-261 and 55-213, Recommended co-requisites: 59-362, 59-363, and 59-365.) (6 laboratory hours per week over two terms, 6 credit course.)

59-391. Pharmacology for Health Sciences
A lecture course of particular interest to students in the health sciences areas. The course material includes the principles of pharmacokinetics and pharmacodynamics, and is aimed at developing an understanding of the function of the human body with respect to the use and effects of drugs in health and disease. (Prerequisites: 55-204, 55-205, and one of 59-261 or 59-263.) (Anti-requisite: 59-291) (3 lecture hours a week).

59-400. Development of Leadership, Outreach and Presentation Skills
Seminars will expose students to new research ideas and techniques as wells as different presentation styles. Students will engage in service, outreach and leadership activities. Students will attend twelve research seminars over the course of two terms, and submit written summaries of three seminars. (36 hours of service activities over two terms); (3 credit hours over two terms); (pass/fail grading). (Open only to students in Honours Chemistry with thesis, Honours Chemistry and Physics with thesis, and Honours Biochemistry with thesis). (Prerequisites: major and cumulative average of 72%). (Co-requisites: must be enrolled in 59-410).

59-410. Research
Original laboratory research under the direction of a faculty member. Student must present three seminars discussing their research project. (1 lecture, 12 laboratory hours per week over two terms; 6 credit hours.) (Only open to students in Chemistry Honours, Chemistry and Physics Honours, Biochemistry Honours; please consult the "Program Requirements" section above.) (Prerequisites: major average of 72% and a cumulative average of 72%.) (Co-requisites: must be enrolled in 59-400).

59-431. Special Topics in Organic Chemistry
Topics may include polymer chemistry, natural product chemistry, advanced synthetic methodology, or design and execution of organic syntheses. (Prerequisite: 59-331 or consent of instructor.) (2 lecture hours a week.) (May be repeated for credit if content changes.)

59-432. Dyes and Pigments - Design, Synthesis, and Properties
This course describes essential design criteria for organic dyes and pigments and common synthetic strategies for their preparation. Also covered are basic structure-property relations regarding their absorption and emission properties. This is an advanced organic chemistry course and requires a good understanding of intermediate organic chemistry and spectroscopic techniques. Pre-requisite: 59-235 (Inorganic Chemistry II) or consent of instructor. (Crosslisted with 59-532)

59-435. Advanced Organic Chemistry
Physical organic chemistry. Includes molecular orbital theory, stereochemistry, thermodynamics, and reaction mechanisms. (Prerequisite: 59-331 or consent of instructor.) (2 lecture hours a week.)

59-440. Kinetics and Photochemistry
Fundamentals of kinetics and photochemistry. Absorption and emission techniques. Surface photochemistry. (2 lecture hours a week.)

59-441. Statistical Thermodynamics
This course covers the following topics: laws of thermodynamics, heat capacities, distribution laws, partition functions, and chemical equilibria and kinetics. The subject will be further illuminated by discussions of low temperature phenomena and spectroscopy. (Prerequisite: 59-241.) (3 lecture hours a week.)

59-442. Nuclear Magnetic Resonance (NMR) Spectroscopy
Theory and applications of Nuclear Magnetic Resonance (NMR) in chemical problems, including the origin of the NMR phenomenon, Fourier transforms and spectral processing, spectrometer hardware, pulse sequences, NMR interactions, relaxation and chemical exchange, double-resonance experiments and two-dimensional NMR. (3 lecture hours a week).

59-445. Advanced Physical Chemistry
Special topics in physical chemistry. (2 lecture hours a week.)

59-446. Molecular Spectroscopy
Symmetry elements, group theory, character tables, rotational and vibrational spectroscopy, electronic spectroscopy transitions, astrochemistry, lasers, photoelectron spectroscopy. , introduction to nuclear magnetic resonance, electron spin resonance. (Prerequisite: 59-340 or consent of instructor.) (Crosslisted with course 59-546)(3 lecture, 3 laboratory hours per week.)

59-450. Special Topics in Main Group Chemistry
This course provides an introduction to the chemistry of main group elements with a particular focus on the elements of the p-block. The material will highlight the similarities and differences observed between organic molecules and those from the rest of the periodic table with respect to their structural features, bonding and reactivity. (Prerequisite: 59-250.) (3 lecture hours a week.)(May be repeated for credit if content changes.)

59-451. Special Topics in Inorganic Chemistry
Advanced topics in inorganic chemistry, bioinorganic chemistry and organometallic chemistry may include analytical and spectroscopic methods of use to the inorganic chemist, advanced topics in main group chemistry, coordination chemistry, organometallic chemistry, free radical chemistry or the chemistry of the lanthanides and actinides. (Prerequisite: 59-351 or Consent of instructor.) (2 lecture hours a week.) (May be repeated for credit if content changes.)

59-452. Surface Chemistry and Analysis
This course provides an introduction to the properties of surfaces with a focus on the formation, characterization and applications of self-assembled monolayers. Specific topics will include methods of preparation, molecular-level control of macroscopic surface properties, chemical reactions on the monolayer surface, and surface characterization techniques. The course will also cover applications of self-assembled monolayers such as their use as etch resists, as substrates for crystallization, and as model biological surfaces. (Prerequisite: 59-350.) (3 lecture hours per week.)

59-464. Enzymology and Biotechnology
This course will focus on the structural and mechanistic properties of biological enzymes. Topics to be covered include, chemical catalysis, kinetics, activity inhibition, catalytic mechanisms, and an overview of modern approaches to studying enzymes. Molecular mechanisms regulating the activities of enzymes in the cell will be discussed. (Prerequisite: 59-261.) (2 lecture hours per week.)

59-466. Drug Design
Lectures cover various aspects of drug discoveries and designs. Beginning with basic knowledge in pharmacokinetics and pharmacodynamics, students should learn how lead is discovered and how the lead is modified to yield potent therapeutic agents. Several techniques in the area of molecular biology, biochemistry, organic chemistry and computational biology will be discussed and presented. (Prerequisite: 59-391.) (3 lecture hours per week.)

59-469. Lipids, Lipoproteins, and Signaling
Biochemistry and cell biology of lipids and their role in cellular signaling, with a special emphasis on the experimental basis of current knowledge. Topics covered include lipid and membrane biochemistry, lipoprotein structure and metabolism, small molecules such as steroids and leukotrienes, and an integrative assessment of the role of lipids in cellular processes such as protein trafficking and intracellular signaling. (Prerequisites:59-363 and 59-365 or permission of the instructor.)

59-473/CHEM-4730. Self-Organization by Molecular Design
Self-organization is a ubiquitous phenomenon in nature (e.g., cell membranes, vesicles, and iridescent surfaces) and technology (e.g., block-copolymers, liquid crystals, and surfactants). This course will provide a basic understanding of the driving forces for self-organization and how the formation of specific self-organized structures (e.g., layers, micelles, tubes, columns, and cubic arrangements) can be programmed into molecules by rational design. The course will also provide an introduction to variable temperature polarized optical microscopy, thermal analysis (DSC and TGA), and variable temperature powder X-ray diffraction as important characterization techniques for these materials. (Prerequisite: 59-230.) (Also offered as 59-573.) (Credit cannot be obtained for both CHEM-4730 and 58-473.)

59-475. Organic Nanomaterials
This course examines the fundamental concepts, preparation strategies and properties of organic/carbon-rich nanomaterials at the nanoscale, and their applications in various areas of modern chemistry (materials, electronics, pharmaceutical, medicine, etc.). A special emphasis is also put on methods and techniques utilized in materials science to characterize organic nanostructures. (Prerequisite for students in undergraduate course: 59-235) (Crosslisted with 59-575)

59-476. Special Topics in Chemistry
(2 lecture hours a week.) (May be repeated for credit if content changes.)

59-480. Bioinformatics/Genomics/Proteomics
Introduction to informatics, flow of genetic information from nucleic acid sequence to amino acid sequence, gene expression profiling at the mRNA level, gene micro arrays, application of genomic database (Swissprot, gene bank). Introduction to functional genomics, proteomics, protein profiling, 2D gel electrophoresis, mass spectrometry of proteins eluted from 2D gels, peptide mass fingerprinting, comparative proteome analysis, application of 2D protein database and MS peptide database, high throughput analysis of protein-protein interactions, antibodies and phage-display technologies for protein micro array analysis, application of the biomolecular interaction network database (BIND) to find and predict protein-protein interactions. (Prerequisite: 59-365 or 55-350.) (2 lecture hours and 1.5 computer lab hour per week.)