. The Computational Core will enable the Center to extract RNA cis-regulatory element information in pre-mRNAs and mRNAs, as detected by DMS chemical probing data (Core 1) and protein binding signatures. The combination of RNA structure, phylogenetics, and protein-RNA interactions will make these new computafional tools of great use, both in the Center, and in the wider Systems Biology community.

Agency
National Institute of Health (NIH)
Type
Specialized Center (P50)
Project #
5P50GM102706-03
Application #
8733714
Study Section
Special Emphasis Panel (ZGM1)
Project Start
Project End
Budget Start
Budget End
Support Year
3
Fiscal Year
2014
Total Cost
Indirect Cost
Name
University of California Berkeley
Department
Type
DUNS #
City
Berkeley
State
CA
Country
United States
Zip Code
94704
O'Connell, Mitchell R; Oakes, Benjamin L; Sternberg, Samuel H et al. (2014) Programmable RNA recognition and cleavage by CRISPR/Cas9. Nature 516:263-6
Gilbert, Luke A; Horlbeck, Max A; Adamson, Britt et al. (2014) Genome-Scale CRISPR-Mediated Control of Gene Repression and Activation. Cell 159:647-61
Rouskin, Silvi; Zubradt, Meghan; Washietl, Stefan et al. (2014) Genome-wide probing of RNA structure reveals active unfolding of mRNA structures in vivo. Nature 505:701-5
Williams, Christopher C; Jan, Calvin H; Weissman, Jonathan S (2014) Targeting and plasticity of mitochondrial proteins revealed by proximity-specific ribosome profiling. Science 346:748-51
Qi, Lei S; Arkin, Adam P (2014) A versatile framework for microbial engineering using synthetic non-coding RNAs. Nat Rev Microbiol 12:341-54
Qi, Lei S; Arkin, Adam P (2014) A versatile framework for microbial engineering using synthetic non-coding RNAs. Nat Rev Microbiol 12:341-54
Jan, Calvin H; Williams, Christopher C; Weissman, Jonathan S (2014) Principles of ER cotranslational translocation revealed by proximity-specific ribosome profiling. Science 346:1257521
Larson, Matthew H; Mooney, Rachel A; Peters, Jason M et al. (2014) A pause sequence enriched at translation start sites drives transcription dynamics in vivo. Science 344:1042-7
Li, Gene-Wei; Burkhardt, David; Gross, Carol et al. (2014) Quantifying absolute protein synthesis rates reveals principles underlying allocation of cellular resources. Cell 157:624-35
Gilbert, Luke A; Larson, Matthew H; Morsut, Leonardo et al. (2013) CRISPR-mediated modular RNA-guided regulation of transcription in eukaryotes. Cell 154:442-51

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