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.
Wednesday, October 9, 2019
SysBio19 Asgn_2_Class__Bornholdt_article
Browse Bornholdt article Ensembles, dynamics, and cell types:
Revisiting the statistical mechanics perspective on cellular regulation.
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?
SysBio19 Asgn_1_Class__Joo_article_2019_10_10
Read carefully Joo article Probabilitic Boolean Networks. 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?
Thursday, August 29, 2019
Greetings to SysBio19
Folks -
This is the forum that we will use to exchange observations about the reading.
Please confirm by commenting on this post.
John
This is the forum that we will use to exchange observations about the reading.
Please confirm by commenting on this post.
John
Thursday, November 15, 2018
SysBio18 Asgn_9C_Class_25_List_01_2018_11_27 Control In/Of GLBA
Build a class list of examples of control IN the GLBA, and what are examples OF external control of the GLBA. Read the comments by your classmates and post a PCRC on the Blog that lists additional 1) Examples of control IN the GLBA. 2) Examples of how one might control the GLBA.
SysBio18 Asgn_9B_Class_25_PPT_03_2018_11_27 Examples of Control
Study PPT 03 PPT03_SysBio_Examples_of_Control_2018_11_15_0601. Review the PPT, which includes general responses from prior classes. Be sure to study slides 36-42. Post a PCRC on the Blog.
SysBio18 Asgn_9A_Class_25_Article_08_2018_11_27 Control Overview
Read Article 08 P. R. LeDuc, W. C. Messner, and J.
P. Wikswo. How do control-based approaches enter into biology?
Annu.Rev.Biomed.Engr. 13:369-396, 2011. This article addresses a problem
central to much of existing biology, systems biology, and organs on a
chip -- much of the work to date has been done in an open-loop manner,
and hence does not adequately probe the system dynamics. Post a PCRC on
the Blog.
Wednesday, October 24, 2018
SysBio18 Asgn_8_Class_18_Article_07_2018_10_25_Vernetti_Coupled_MPS
Coupled Organ Chips: Read Article 07 Vernetti, L, et al. Functional Coupling of Human Microphysiology Systems: Intestine, Liver, Kidney Proximal Tubule, Blood-Brain Barrier and Skeletal Muscle. Sci. Rep. 7: 42296. 2017. PMCID: PMC5235976.
Think about how this approach could be used to study the Gut-Liver-Brain axis!
Look at the Del Rio, et al., Nutrients, 2017 to get some idea of how much work was required to confirm the prediction regarding CSF TMAO.
Post a PCRC on the Blog.
Think about how this approach could be used to study the Gut-Liver-Brain axis!
Look at the Del Rio, et al., Nutrients, 2017 to get some idea of how much work was required to confirm the prediction regarding CSF TMAO.
Post a PCRC on the Blog.
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