Spring 2022 - MBB 464 D100
From Genome to System (3)
Class Number: 2678
Delivery Method: In Person
Course Times + Location:
Jan 10 – Apr 11, 2022: Wed, 8:30–10:20 a.m.
Jan 10 – Apr 11, 2022: Fri, 8:30–10:20 a.m.
1 778 782-5660
Prerequisites:MBB 331 and MBB 342.
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 will be explored. Applications of these approaches in the fields of microbial evolution, interaction networks, genetic engineering and drug discovery will be discussed.
The 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.
A First Course in Systems Biology, 2nd Ed, Everhard Voit, 2017, Garland Science. E-book.
Department Undergraduate Notes:
- 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 Accessible Learning (778-782-3112 or e-mail: email@example.com)
ACADEMIC INTEGRITY: YOUR WORK, YOUR SUCCESS
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TEACHING AT SFU IN SPRING 2022
Teaching at SFU in spring 2022 will involve primarily in-person instruction, with safety plans in place. Some courses will still be offered through remote methods, and if so, this will be clearly identified in the schedule of classes. You will also know at enrollment whether remote course components will be “live” (synchronous) or at your own pace (asynchronous).
Enrolling in a course acknowledges that you are able to attend in whatever format is required. You should not enroll in a course that is in-person if you are not able to return to campus, and should be aware that remote study may entail different modes of learning, interaction with your instructor, and ways of getting feedback on your work than may be the case for in-person classes.
Students with hidden or visible disabilities who may need class or exam accommodations, including in the context of remote learning, are advised to register with the SFU Centre for Accessible Learning (firstname.lastname@example.org or 778-782-3112) as early as possible in order to prepare for the spring 2022 term.