793C Systems Biology 2

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Course Information

Description: Mathematical Systems Biology.

Instructor: Casian Pantea. email me

Class schedule: Tuesdays, Thursdays, 10:00-11:15AM in Armstrong 313

Office hours: Thursdays 11:15-12:15PM, and by appointment, in Armstrong Hall 305B

Info sheet containing more or less the stuff on this webpage.

Textbooks and resources

Textbooks:

[W Wilkinson, Stochastic modelling for systems biology, 2nd edition]

[R Ross, Introduction to probability models, 9th edition]

[S Sontag, Lecture Notes on Mathematical Systems Biology]

Useful free resources:

Web goodies

Wikipedia
Khan Academy


Evaluation

Grading scheme

  • 40% Homework
  • 30% Project
  • 30% Final exam

Homework

  • Three homework sets will be assigned throughout the semester -- please see the course schedule below for exact dates.
  • Late turn-ins will not be accepted.

Final Exam

  • Thursday May 4 2017, 5-7PM in Armstrong 313.
  • Final is cumulative.

Tentative Course Schedule

Date Topic Resources HW/Exams
Jan 10 Intro Probability [R] Chapter 1
Jan 12 Intro Probability [R] Chapter 1
Jan 17 Random variables [R] 2.2-2.4
Jan 19 Random variables [R 2.2-2.4
Jan 24 Expectation, variance, conditional expectation [W] 3.2, 3.7, [R] Chapter 3
Jan 26 Poisson processes, exponential distribution [W] Chapter 3, [R] Chapter 5
Jan 31 Stochastic simulation [W] 4.1-4.7
Feb 2 R [W] 4.9-4.10
Feb 7 Discrete time Markov processes [W] Chapter 5, [R] Chapter 4
Feb 9 Discrete time Markov chains [W] Chapter 5, [R] Chapter 4
Feb 14 Discrete time Markov chains [W] Chapter 5, [R] Chapter 4
Feb 16 Continuous time Markov chains [W] Chapter 5, [R] Chapter 4
Feb 21 Continuous time Markov chains [W] Chapter 5, [R] Chapter 4
Feb 23
Feb 28 Due: all [W] chapters 3, 4, 5 questions
Mar 2
Mar 14
Mar 16
Mar 21
Mar 23
Mar 28
Mar 30
Apr 4
Apr 6
Apr 11
Apr 13
Apr 18
Apr 20 Project presentations
Apr 25 Project presentations
Apr 27 Review
May 4 Final exam


Inclusivity statement

The West Virginia University community is committed to creating and fostering a positive learning and working environment based on open communication, mutual respect, and inclusion. If you are a person with a disability and anticipate needing any type of accommodation in order to participate in this class, please advise me and make appropriate arrangements with the Office of Accessibility Services (293-6700). For more information on West Virginia University's Diversity, Equity, and Inclusion initiatives, please see http://diversity.wvu.edu.