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Doctor of Philosophy (Ph.D.); Biochemistry — Chemical Biology

Offered by: Biochemistry     Degree: Doctor of Philosophy

Program Requirements

Thesis

A thesis for the doctoral degree must constitute original scholarship and must be a distinct contribution to knowledge. It must show familiarity with previous work in the field and must demonstrate ability to plan and carry out research, organize results, and defend the approach and conclusions in a scholarly manner. The research presented must meet current standards of the discipline; as well, the thesis must clearly demonstrate how the research advances knowledge in the field. Finally, the thesis must be written in compliance with norms for academic and scholarly expression and for publication in the public domain.

Required Courses (7 credits)

  • BIOC 610 Seminars in Chemical Biology 1 (1 credit)

    Offered by: Biochemistry (Faculty of Medicine)

    Administered by: Graduate Studies

    Overview

    Biochemistry : First multidisciplinary seminar in chemical biology.

    Terms: Fall 2013, Winter 2014

    Instructors: John R Silvius (Fall) John R Silvius (Winter)

    • Restrictions: Open only to students registered for the M.Sc. or Ph.D. Graduate Option in Chemical Biology.
  • BIOC 611 Seminars in Chemical Biology 3 (1 credit)

    Offered by: Biochemistry (Faculty of Medicine)

    Administered by: Graduate Studies

    Overview

    Biochemistry : Third multidisciplinary seminar in chemical biology.

    Terms: Fall 2013, Winter 2014

    Instructors: John R Silvius (Fall) John R Silvius (Winter)

    • Restrictions: Open only to students registered for the M.Sc. or Ph.D. Graduate Option in Chemical Biology.
  • BIOC 689 Seminars in Chemical Biology 2 (1 credit)

    Offered by: Biochemistry (Faculty of Medicine)

    Administered by: Graduate Studies

    Overview

    Biochemistry : Second multidisciplinary seminar in chemical biology.

    Terms: Fall 2013, Winter 2014

    Instructors: John R Silvius (Fall) John R Silvius (Winter)

    • Restrictions: Open only to students registered for the M.Sc. or Ph.D. Graduate Option in Chemical Biology. Not open to students who have taken CHEM 689.
  • BIOC 690 Seminars in Chemical Biology 4 (1 credit)

    Offered by: Biochemistry (Faculty of Medicine)

    Administered by: Graduate Studies

    Overview

    Biochemistry : Fourth multidisciplinary seminar in chemical biology.

    Terms: Fall 2013, Winter 2014

    Instructors: John R Silvius (Fall) John R Silvius (Winter)

    • Restrictions: Open only to students registered for the M.Sc. or Ph.D. Graduate Option in Chemical Biology. Not open to students who have taken CHEM 690.
  • BIOC 696 Seminars in Biochemistry (3 credits) *

    Offered by: Biochemistry (Faculty of Medicine)

    Administered by: Graduate Studies

    Overview

    Biochemistry : Seminars in biochemistry.

    Terms: Fall 2013, Winter 2014

    Instructors: Bruno Tremblay (Fall)

    • Restriction: Open to M.Sc. and Ph.D. Biochemistry students only.
  • BIOC 701 Research Seminar 1 **

    Offered by: Biochemistry (Faculty of Medicine)

    Administered by: Graduate Studies

    Overview

    Biochemistry : Presentation on original current laboratory research carried out by student.

    Terms: Fall 2013, Winter 2014

    Instructors: There are no professors associated with this course for the 2013-2014 academic year.

    • Biochemistry graduate students
  • BIOC 702 Ph.D. Thesis Proposal **

    Offered by: Biochemistry (Faculty of Medicine)

    Administered by: Graduate Studies

    Overview

    Biochemistry : Dissertation presented to Committee.

    Terms: Fall 2013, Winter 2014

    Instructors: There are no professors associated with this course for the 2013-2014 academic year.

    • Biochemistry graduate students
  • BIOC 703 Research Seminar 2 **

    Offered by: Biochemistry (Faculty of Medicine)

    Administered by: Graduate Studies

    Overview

    Biochemistry : Presentation of the planned thesis including central findings and original contribution to knowledge in the field of research.

    Terms: Fall 2013, Winter 2014

    Instructors: There are no professors associated with this course for the 2013-2014 academic year.

    • Restriction: Ph.D. students in Biochemistry

* Students promoted directly from the M.Sc. to the Ph.D. program, and who registered for and passed BIOC 696 at the M.Sc. level, do not register for BIOC 696 at the Ph.D. level.

** NOTE: Students DO NOT register for these courses until notified by the Student Affairs Officer.

Students must complete BIOC 701 in the third term after admission to the program, BIOC 702 in the fifth or sixth term, and BIOC 703 approximately six months prior to submission of the Ph.D. thesis.

Complementary Courses*** (9 credits)

At least 3 credits from the following:

  • CHEM 502 Advanced Bio-Organic Chemistry (3 credits)

    Offered by: Chemistry (Faculty of Science)

    Overview

    Chemistry : This course will cover biologically relevant molecules, particularly nucleic acids, proteins, and their building blocks. In each case, synthesis and biological functions will be discussed. The topics include synthesis of oligonucleotides and peptides; chemistry of phosphates; enzyme structure and function; coenzymes, and enzyme catalysis; polyketides; antiviral and anticancer agents.

    Terms: Winter 2014

    Instructors: Karine Auclair, Laura Pavelka (Winter)

    • Winter
    • Prerequisite: CHEM 302
    • Restriction: Not open to students who have taken CHEM 402.
  • CHEM 503 Drug Design and Development 1 (3 credits)

    Offered by: Chemistry (Faculty of Science)

    Overview

    Chemistry : Interdisciplinary course in drug design and development covering combinatorial chemistry, process chemistry, structure-activity relationship, pharmacokinetics and metabolism, mechanisms of action and steps in drug development, and principles and problems in drug design.

    Terms: Fall 2013

    Instructors: Nicolas Moitessier (Fall)

    • Fall
    • Prerequisites: CHEM 302, BIOL 200, BIOL 201 or BIOC 212, or permission of instructor
    • Restriction: U3 and graduate students. Students can register only with permission of coordinators.
  • PHAR 503 Drug Discovery and Development 1 (3 credits)

    Offered by: Pharmacology and Therapeutics (Faculty of Science)

    Overview

    Pharmacology and Therapeutics : Chemistry, mechanisms of action, and steps in drug discovery and development.

    Terms: Fall 2013

    Instructors: Dusica Maysinger, Lisa Munter (Fall)

    • Fall
    • Prerequisites: PHAR 301 or PHAR 303; or permission of instructor

At least 3 credits from the following:

  • BIOC 570 Biochemistry of Lipoproteins (3 credits)

    Offered by: Biochemistry (Faculty of Science)

    Overview

    Biochemistry : Structure, function and metabolism of lipids and lipoproteins as they relate to lipid storage diseases, obesity, diabetes and heart disease.

    Terms: Winter 2014

    Instructors: Robert Kiss, Christine E Laberge (Winter)

    • Winter
    • Prerequisite: BIOC 311 or equivalent
    • Restriction: Open to U3 and graduate students
  • BIOC 600 Advanced Strategies in Genetics and Genomics (3 credits)

    Offered by: Biochemistry (Faculty of Medicine)

    Administered by: Graduate Studies

    Overview

    Biochemistry : Advanced technologies and methods in genomics research, presented by experts actively pursuing the experimental approaches discussed.

    Terms: Fall 2013

    Instructors: Thomas Duchaine, Alexandre Montpetit, Michael Trevor Hallett (Fall)

    • Enrolment limited to 15 graduate students.
    • Prerequisite: BIOC 454 or equivalent
    • Restriction: Must take part in the Biochemistry graduate program
  • BIOC 603 Genomics and Gene Expression (3 credits)

    Offered by: Biochemistry (Faculty of Medicine)

    Administered by: Graduate Studies

    Overview

    Biochemistry : Examination of recent developments in analysis of eukaryotic cell genomes and control of gene expression. Molecular genetics; genomics and the bioinformatics of analysis of genomic and functional-genomic data; mechanisms and signal-transduction pathways for regulation of gene expression; applications to human disease.

    Terms: Fall 2013

    Instructors: William Joseph Muller, Imed Eddine Gallouzi, Maxime Bouchard (Fall)

    • Fall
    • Prerequisites: BIOC 454 and permission of instructor.
  • BIOC 604 Macromolecular Structure (3 credits)

    Offered by: Biochemistry (Faculty of Medicine)

    Administered by: Graduate Studies

    Overview

    Biochemistry : X-Ray crystallography, NMR spectroscopy, computational methods and theoretical approaches to the determination and analysis of macromolecular structures. Theory and practical applications will be covered. Examples will include interpretation of structure as it applies to biological functions. In conjunction with the Université de Montréal.

    Terms: Winter 2014

    Instructors: Bhushan Nagar, Thomas Martin Schmeing, Kalle Burgess Gehring (Winter)

    • Winter
    • Prerequisite: BIOC 450 or equivalent
    • Lectures in French and English
    • Offered in the Fall term, in even alternate years.
  • BIOC 605 Protein Biology and Proteomics (3 credits)

    Offered by: Biochemistry (Faculty of Medicine)

    Administered by: Graduate Studies

    Overview

    Biochemistry : Examination of recent developments in protein biology and proteomics analysis. Proteomics, modeling and biophysical approaches to characterize the functional interactions of biological macromolecules; applications to biological problems.

    Terms: Winter 2014

    Instructors: Jason Young, Kurt Dejgaard, Enrico Purisima (Winter)

    • Winter
    • Prerequisite: BIOC 450 or equivalent, or permission of instructor.
  • EXMD 615 Essentials of Glycobiology (3 credits)

    Offered by: Medicine (Faculty of Medicine)

    Administered by: Graduate Studies

    Overview

    Experimental Medicine : Examination of the structure, function, and biosynthesis of glycoproteins, glycolipids and glycosaminoglycans, and the biological role of complex carbohydrates. Lectins, methods for elucidating carbohydrate structure, glycomics, and human diseases due to disorders of glycan synthesis.

    Terms: Winter 2014

    Instructors: Brian Gilfix (Winter)

    • Winter
  • EXMD 635D1 Experimental/Clinical Oncology (3 credits)

    Offered by: Medicine (Faculty of Medicine)

    Administered by: Graduate Studies

    Overview

    Experimental Medicine : The course will deal, on a site by site basis, with the incidence of cancer, present treatment, treatment outcome, underlying causes, current research and directions for development of new treatments. Chemotherapy, surgery, radiation therapy and nutrition as therapy and treatment of cancer will be included.

    Terms: Fall 2013

    Instructors: Nicole Beauchemin (Fall)

    • Students must register for both EXMD 635D1 and EXMD 635D2
    • No credit will be given for this course unless both EXMD 635D1 and EXMD 635D2 are successfully completed in consecutive terms
  • EXMD 635D2 Experimental/Clinical Oncology (3 credits)

    Offered by: Medicine (Faculty of Medicine)

    Administered by: Graduate Studies

    Overview

    Experimental Medicine : See EXMD 635D1 for course description.

    Terms: Winter 2014

    Instructors: Maria Hadjopoulos (Winter)

    • Prerequisite: EXMD 635D1
    • No credit will be given for this course unless both EXMD 635D1 and EXMD 635D2 are successfully completed in consecutive terms

Plus additional credits to a total of at least 9 complementary course credits from the following list:

  • CHEM 504 Drug Design and Development 2 (3 credits)

    Offered by: Chemistry (Faculty of Science)

    Overview

    Chemistry : Computational methods used in drug design and discovery including QSAR, docking/scoring, molecular mechanics and molecular dynamics, QM/MM, library profiling and library design.

    Terms: This course is not scheduled for the 2013-2014 academic year.

    Instructors: There are no professors associated with this course for the 2013-2014 academic year.

    • Winter
    • Prerequisite: CHEM 503 and permission of instructor
    • Restriction: U3 and graduate students. Students can register only with permission of coordinators
  • CHEM 522 Stereochemistry (3 credits)

    Offered by: Chemistry (Faculty of Science)

    Overview

    Chemistry : Stereoisomers, their nomenclature and configuration. Conformational analysis, separation of stereoisomers, and stereocontrol in organic synthesis.

    Terms: Fall 2013

    Instructors: Nicolas Moitessier (Fall)

    • Winter
    • Prerequisite: CHEM 302
    • Restriction: Not open to students who have taken CHEM 623
  • CHEM 582 Supramolecular Chemistry (3 credits)

    Offered by: Chemistry (Faculty of Science)

    Overview

    Chemistry : Introduction to supramolecular organization will be followed by discussions on the nature of interactions and methodologies to create ordered aggregates of high complexity. Potential of supramolecular chemistry in fabricating smart materials will be explored using specific topics including inclusion chemistry, dendrimers, molecular self-assembly and crystal engineering.

    Terms: Fall 2013

    Instructors: Hanadi Sleiman (Fall)

    • Winter
    • Prerequisites: CHEM 222, CHEM 381
  • CHEM 591 Bioinorganic Chemistry (3 credits)

    Offered by: Chemistry (Faculty of Science)

    Overview

    Chemistry : The roles of transition and main group elements in biology and medicine will be examined with an emphasis on using tools for structure and genome searching as well as becoming acquainted with experimental spectroscopic methods useful for bioinorganic chemistry such as macromolecular X-ray diffraction, EPR and EXAFS.

    Terms: This course is not scheduled for the 2013-2014 academic year.

    Instructors: There are no professors associated with this course for the 2013-2014 academic year.

    • Winter
    • Prerequisite: CHEM 381
    • Restriction: For Honours and Major Chemistry students or with permission
  • CHEM 621 Reaction Mechanisms in Organic Chemistry (5 credits)

    Offered by: Chemistry (Faculty of Science)

    Administered by: Graduate Studies

    Overview

    Chemistry : A systematic survey of the mechanisms of the most common organic reactions from studies of reactions in the current literature.

    Terms: Fall 2013

    Instructors: Chaojun Li (Fall)

  • CHEM 629 Organic Synthesis (5 credits)

    Offered by: Chemistry (Faculty of Science)

    Administered by: Graduate Studies

    Overview

    Chemistry : An advanced course in the synthesis of organic molecules with an emphasis on stereoselective transformations. Topics will include multiple bond formation, functional group interconversions, carbon-carbon bond formation and stereoselective oxidations and reductions.

    Terms: Winter 2014

    Instructors: Jean-Philip Lumb (Winter)

  • CHEM 655 Advanced NMR Spectroscopy (4 credits)

    Offered by: Chemistry (Faculty of Science)

    Administered by: Graduate Studies

    Overview

    Chemistry : Advanced techniques of nuclear magnetic resonance spectroscopy, Fourier transform methods, multiple pulsing, two-dimensional pulse sequencing.

    Terms: This course is not scheduled for the 2013-2014 academic year.

    Instructors: There are no professors associated with this course for the 2013-2014 academic year.

    • 1 lecture
    • Prerequisite: CHEM 555 or equivalent.
  • EXMD 510 Bioanalytical Separation Methods (3 credits)

    Offered by: Medicine (Faculty of Science)

    Overview

    Experimental Medicine : The student will be taught the capabilities and limitations of modern separation methods (gas and high-performance liquid chromatography, capillary electrophoresis, hyphenated techniques). Application of these techniques to solve analytical problems relevant to biomedical research will be emphasized, with special attention being paid to the processing of biological samples.

    Terms: Fall 2013

    Instructors: Bertrand Jean-Claude (Fall)

    • Fall
  • EXMD 602 Techniques in Molecular Genetics (3 credits)

    Offered by: Medicine (Faculty of Medicine)

    Administered by: Graduate Studies

    Overview

    Experimental Medicine : Precise description of available methods in molecular genetics, and rationales for choosing particular techniques to answer questions posed in research proposals for targeting genes in the mammalian genome. Emphasis placed on analysis of regulation of gene expression and mapping, strategies for gene cloning. Course divided between lectures and student seminars.

    Terms: Winter 2014

    Instructors: Danuta Radzioch, Danielle Malo (Winter)

    • Offered in conjunction with the Department of Experimental Medicine.
    • Prerequisite (Graduate): Admission by permission of instructor.
  • PHAR 504 Drug Discovery and Development 2 (3 credits)

    Offered by: Pharmacology and Therapeutics (Faculty of Science)

    Overview

    Pharmacology and Therapeutics : Nobel Prize-winning discoveries as a basis for drug development.

    Terms: Winter 2014

    Instructors: Dusica Maysinger, Lisa Munter (Winter)

    • Winter
    • Prerequisites: PHAR 301 or PHAR 303; or permission of instructor
    • Restriction: U3 and graduate students. Students can register only with permission of coordinators.
  • PHAR 562 General Pharmacology 1 (3 credits)

    Offered by: Pharmacology and Therapeutics (Faculty of Science)

    Overview

    Pharmacology and Therapeutics : Topics in pharmacology with an emphasis on molecular aspects and the nervous system; topics include molecular mechanisms of drug-action, cellular targets and rationale for therapeutics.

    Terms: Fall 2013

    Instructors: Guillermina Almazan, Paul Clarke (Fall)

    • Fall
    • Prerequisite: PHAR 301.
    • Restriction: Open to U3 students in the minor, major or honours program in Pharmacology, or with permission of instructor.
  • PHAR 563 General Pharmacology 2 (3 credits)

    Offered by: Pharmacology and Therapeutics (Faculty of Science)

    Overview

    Pharmacology and Therapeutics : Selected topics in pharmacology of the endocrine, metabolic, and cardiovascular systems. Additional topics include: pharmacogenetics/pharmacogenomics, chronopharmacology, molecular structure in pharmacology, epigenetic targets in cancer chemotherapy, and stem cell therapies.

    Terms: Winter 2014

    Instructors: Daniel Bernard (Winter)

    • Winter
    • Prerequisite: PHAR 301.
    • Restriction: Open to U3 students in the minor, major or honours program in Pharmacology, or with permission of instructor.
  • PHAR 707 Topics in Pharmacology 6 (3 credits)

    Offered by: Pharmacology and Therapeutics (Faculty of Medicine)

    Administered by: Graduate Studies

    Overview

    Pharmacology and Therapeutics : Topics in pharmacology.

    Terms: This course is not scheduled for the 2013-2014 academic year.

    Instructors: There are no professors associated with this course for the 2013-2014 academic year.

    • Prerequisite: Permission of the Instructor.

*** Complementary courses are chosen in consultation with the Research Director.

The Graduate Advisory Committee may stipulate additional coursework depending on the background of the candidate. BIOC 450 (Protein Structure and Function) and BIOC 454 (Nucleic Acids) are additional requirements for those who have not previously completed equivalent courses in their prior training.

Faculty of Medicine—2013-2014 (last updated Jul. 30, 2013) (disclaimer)