BINF 701 – Systems Biology

BI0S 701 – Biochemical Systematics

Course Time: Tuesdays, 1:30-4:10 pm
Course Location : Room 327 Occoquan Building, Prince William Campus
Instructor : Saleet Jafri, 703-993-8420, sjafri@gmu.edu
Office Hours : By appointment in Krasnow Institute Room 234
Course Web Page : http://www.binf.gmu.edu/jafri/binf701/
Prerequisites: Prerequisite: Admission to the Ph.D. program in biosciences or bioinformatics, CHEM 663 or equivalent.

Course Description:
Introduction to systems biology with an emphasis on approaches currently employed and the types of scientific questions studied.

Grading Policy:
The course grade will be determined as follows:
Mid-Term Project - 30%                80-89.9    B
Final Exam - 40%                          80-89.9    C
Final Project - 30%                       70-79.9    F

Students are expected to attend lecture and participate in class. Students are expected to take initiative and read references referred to in lecture.

Academic Honesty Policy:
Academic dishonesty will not be tolerated. This includes cheating, plagiarism, and falsification of academic records. That being said, you can help each other out on the homework (this does not mean that you can copy each other's homework).

Important Dates :
Wednesday, August 27 - First Day of Class
Wednesday, October 1- Take-home Mid-Term Exam Posted
Wednesday, October 8 - Take-home Mid-Term Exam Due
Wednesday, November 26 - No class Thanksgiving Break
Wednesday, December 3 - Project Presentations - Last Day of Class
Wednesday, December 10 - Final Exam 1:30-4:10

Course Schedule

Wednesday, August 27 - Introduction to Systems Biology (Saleet Jafri)
Wednesday, September 3 - Fundamentals of Calcium Signaling (Aman Ullah)
Wednesday, September 10 - Systems Biology of the Heart: Part I (Jafri)
Wednesday, February 18 - Systems Biology of the Heart: Part II (Jafri)
Wednesday, October 1- Take-home Mid-Term Exam Posted
Wednesday, October 8 - Take-home Mid-Term Exam Due
Wednesday, October 8 - System Approaches to Unraveling the Genetics of Heart Failure (James Weiss, UCLA)
Wednesday, October 15 - E. Coli System Biology and Calmodulin Mutations
Wednesday, October 15 - Students Present Midterms
Wednesday, October 22 - Students Present Midterms
Wednesday, November 5 - Systems Immunology
Wednesday, November 5 - Mock Final Exam and Questions
Wednesday, November 19 - Project Presentations
Wednesday, November 26 - No class Thanksgiving Break
Wednesday, December 3 - Project Presentations - Last Day of Class
Wednesday, December 10 - Final Exam 1:30-4:10
Combining wet lab and computational simulations to predict protective immune responses to Mycobacterium tuberculosis (Denise Kirschner, U. of Michigan)

Topics

1. Introduction to Systems Biology
a. Bottom up vs top down
b. Discovery based research vs hypothesis driven
2. Sequencing and Genome
3. Microarrays and Gene Expression
4. Proteomics
Bottom Up
5. Molecular
6. Biophysical
7. Cellular
8. Organ Level
9. Organism
10. Multiscale Integrations
a. Mitochondria
b. Heart
c. Disease - Heart Failure, Ischemia

Sage Advice: If you want to do well in course: 1) Do all the problem sets. 2) Read the text book and any other assigned reading. 3) Ask questions in class and office hours. 3) If you are having difficulty doing the problem sets, be sure to get help.  I encourage the students discussing the course material and problems, but require everyone to do the work - NO COPYING.



Saleet Jafri
Tuesday September 2, 2014