Synthetic signaling systems: half-life control as a determinant of dynamic properties. Cellular stress responses often rely on underlying regulatory processes that are highly dynamic. In the context of interconnected gene-regulatory and signaling networks, the lifetime of mRNA and protein molecules has a large effect on the overall behavior of the cell. This effect often manifests itself in the underlying network dynamics, as degradation rates can play a central role in determining the crucial timing of events. In this program, we will examine the role of degradation on signaling networks. To do this, we will utilize tools from computational biophysics and synthetic biology to design and construct novel gene signaling circuits that allow for control over the degradation rates of proteins and mRNA.

Agency
National Institute of Health (NIH)
Institute
National Institute of General Medical Sciences (NIGMS)
Type
Specialized Center (P50)
Project #
5P50GM085764-03
Application #
8380339
Study Section
Special Emphasis Panel (ZGM1-CBCB-2)
Project Start
Project End
Budget Start
2012-09-01
Budget End
2013-08-31
Support Year
3
Fiscal Year
2012
Total Cost
$414,922
Indirect Cost
$145,531
Name
University of California San Diego
Department
Type
DUNS #
804355790
City
La Jolla
State
CA
Country
United States
Zip Code
92093
Saito, Rintaro; Rocanin-Arjo, Anaïs; You, Young-Hyun et al. (2016) Systems biology analysis reveals role of MDM2 in diabetic nephropathy. JCI Insight 1:e87877
Din, M Omar; Danino, Tal; Prindle, Arthur et al. (2016) Synchronized cycles of bacterial lysis for in vivo delivery. Nature 536:81-5
Gendron, Joshua M; Webb, Kristofor; Yang, Bing et al. (2016) Using the Ubiquitin-modified Proteome to Monitor Distinct and Spatially Restricted Protein Homeostasis Dysfunction. Mol Cell Proteomics 15:2576-93
Singec, Ilyas; Crain, Andrew M; Hou, Junjie et al. (2016) Quantitative Analysis of Human Pluripotency and Neural Specification by In-Depth (Phospho)Proteomic Profiling. Stem Cell Reports 7:527-42
Srivas, Rohith; Shen, John Paul; Yang, Chih Cheng et al. (2016) A Network of Conserved Synthetic Lethal Interactions for Exploration of Precision Cancer Therapy. Mol Cell 63:514-25
Engin, H Billur; Kreisberg, Jason F; Carter, Hannah (2016) Structure-Based Analysis Reveals Cancer Missense Mutations Target Protein Interaction Interfaces. PLoS One 11:e0152929
Steiner, Paul J; Williams, Ruth J; Hasty, Jeff et al. (2016) Criticality and Adaptivity in Enzymatic Networks. Biophys J 111:1078-87
Harper, J Wade; Bennett, Eric J (2016) Proteome complexity and the forces that drive proteome imbalance. Nature 537:328-38
Didovyk, Andriy; Borek, Bartłomiej; Hasty, Jeff et al. (2016) Orthogonal Modular Gene Repression in Escherichia coli Using Engineered CRISPR/Cas9. ACS Synth Biol 5:81-8
Yu, Michael Ku; Kramer, Michael; Dutkowski, Janusz et al. (2016) Translation of Genotype to Phenotype by a Hierarchy of Cell Subsystems. Cell Syst 2:77-88

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