The Systems Biology of COVID-19 and the SARS-CoV-2 virus. The class will build a foundation that includes the emergence of complexity, simple biological subsystems, their reductionist and equivalent toy and organ-chip models, and the measurements required to specify model architecture and parameters. Applications to biology, physiology, medicine, chemical and biological defense, pharmacology, drug discovery, and toxicology. UGrad: PHYS 240 01 and BME 290B; Grad: PHYS 326 and BME 395C.
Thursday, November 7, 2019
SysBio19 Asgn_9_Due_5:00PM Monday Nov 11: Gates article in Boolean_Read folder_2019_11_12 Lead: Kyle
Structural and Dynamic Network Control: Read
carefully Gates article in Boolean_Read folder Gates and Rocha, SciRpts
(2016) "Control of complex networks requires both structure and
dynamics.". Answer the questions: 1) What did you already know? 2) What
did you learn? 3) What is your most pressing question that you would
like Kyle to explain in class? 4) How does this relate to your project?
Monday, October 28, 2019
Class GRN Interest Poll
List the regulatory/differentiation networks that are of greatest interest to you and most closely related to your overall educational goals: Please respond before class tomorrow (Tuesday, October 29).
SysBio19 Asgn_8_Due_Tuesday_43767__Liu_article_in_Control_Folder_2019_10_29 Lead: Javier
Network Observability: Read carefully Liu article_in_Control_Folder Liu, Y. Y., et al. (2013). "Observability of complex systems." PNAS 110(7): 2460-2465.. Answer the questions: 1) What did you already know? 2) What did you learn? 3) What is your most pressing question that you would like Jaview to explain in class? 4) How does this relate to your project?
SysBio19 Asgn_7_Due_Tuesday_43767__Liu_article_in_Control_Folder_2019_10_29 Lead: Aiden&Nilai
Network Controllability: Read carefully Liu
article_in_Control_Folder Liu, Y. Y., et al. (2011). "Controllability
of complex networks." Nature 473(7346): 167-173.. Answer the questions:
1) What did you already know? 2) What did you learn? 3) What is your
most pressing question that you would like Aiden and Nilai to explain in
class? 4) How does this relate to your project?
Wednesday, October 16, 2019
SysBio19 Asgn_6_Due_Sunday_20-0ct-2019__LeDuc_article_in_Control_Folder_2019_10_22
Read carefully LeDuc article_in_Control_Folder Control of biology. Answer the questions: 1) What did you already know? 2) What did you learn? 3) What is your most pressing question that you would like Nicole to explain in class? 4) How does this relate to your project?
Friday, October 11, 2019
SysBio19 Asgn_5_Class__Woo_article in Networks Folder_2019_10_17 - Due, Tuesday, Oct 15!
Read carefully Woo article in Networks Folder: Elucidating Compound
Mechanism of Action byNetwork Perturbation Analysis. Answer the
questions: 1) What did you already know? 2) What did you learn? 3) What
is your most pressing question that you would
like Blake, Cody, and Tejas to explain in class? 4) How does this
relate to your project?
Wednesday, October 9, 2019
SysBio19 Asgn_4_Class__Yachie-Kinoshita_article
Browse Yachie-Kinoshita article Modeling signaling-dependent
pluripotency with Boolean logic to predict cell fate transitions. Scan
this article to familiarize yourself with the contents. Answer the
questions: 1) What did you already know? 2) What did you learn? 3) What
is your most pressing question that you would like Kyle to explain in
class? 4) How does this relate to your project?
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