Fall 2016 - MBB 440 D100
Selected Topics in Contemporary Molecular Biology (3)
Class Number: 1437
Delivery Method: In Person
The topics in this course will vary from term to term, depending on faculty availability and student interest.
From Genome to SystemThe process of extracting biochemical content from genome annotations and literature sources to computationally catalog and interconnect the metabolic pathways available to the cell (i.e., metabolic reconstruction) is well established and has been carried out for a growing number of organisms on the genome scale. Such network reconstruction has led to the development of modeling approaches that gain a better understanding of the observable phenotypes and coordinated functions of the cell. As a result, these approaches are being used to apply and develop in silico models for biological discovery and engineering applications.
In this course we will cover conceptually some methods that enable the integration of Biochemical, Genetic and Genomic knowledge (BiGG) to reconstruct a genomic scale network that defines the metabolic physiology of an organism. We will also describe through examples computational models that integrate high-throughput data sets for prospective experimentation and validation. Finally, we will show how valuable and relevant these approaches are at making important biological predictions that can be validated experimentally. Applications in the fields of microbial evolution, interaction networks, genetic engineering and drug discovery will be discussed through student presentations
LECTURE TOPICS:-What is System Biology?
-Network reconstruction from biological data
-Genomic scale reconstruction of prokaryotes
-Genomic scale reconstruction of eukaryotes
-Biochemically, Genomically and Genetically structured database (BiGG)
-Properties of reconstituted networks
-Phenotype potential of reconstituted networks
-Applications in microbial evolution, genetic engineering, drug discovery, environmental science, synthetic biology and biomedicine
- 2 Midterm Exams (2x30%) 60%
- Paper presentation 20%
- Assignments, participation 20%
This course can be counted towards a certificate in genomics.
MBB 331 and MBB 342
Systems Biology, Constraint-based Reconstruction and Analysis. Bernhard O. Palsson. 2015. Cambridge University Press.
Systems Biology. Robert A. Meyers (Editor). 2012. Wiley-Blackwell.
Department Undergraduate Notes:
- Students are advised to review the plagiarism tutorial found at
- For help with writing, learning and study strategies please contact the Student Learning Commons at
- Students requiring accommodations as a result of a disability, must contact the Centre for Students with Disabilities (778-782-3112 or e-mail: firstname.lastname@example.org)
SFU’s Academic Integrity web site http://students.sfu.ca/academicintegrity.html is filled with information on what is meant by academic dishonesty, where you can find resources to help with your studies and the consequences of cheating. Check out the site for more information and videos that help explain the issues in plain English.
Each student is responsible for his or her conduct as it affects the University community. Academic dishonesty, in whatever form, is ultimately destructive of the values of the University. Furthermore, it is unfair and discouraging to the majority of students who pursue their studies honestly. Scholarly integrity is required of all members of the University. http://www.sfu.ca/policies/gazette/student/s10-01.html
ACADEMIC INTEGRITY: YOUR WORK, YOUR SUCCESS