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Items: 8


Pinetree: a step-wise gene expression simulator with codon-specific translation rates.

Jack BR, Wilke CO.

Bioinformatics. 2019 Mar 28. pii: btz203. doi: 10.1093/bioinformatics/btz203. [Epub ahead of print]


Combinatorial Approaches to Viral Attenuation.

Paff ML, Jack BR, Smith BL, Bull JJ, Wilke CO.

mSystems. 2018 Jul 31;3(4). pii: e00046-18. doi: 10.1128/mSystems.00046-18. eCollection 2018 Jul-Aug.


Measuring evolutionary rates of proteins in a structural context.

Sydykova DK, Jack BR, Spielman SJ, Wilke CO.

Version 2. F1000Res. 2017 Oct 16 [revised 2018 Jan 1];6:1845. doi: 10.12688/f1000research.12874.2. eCollection 2017.


Phage-Bacterial Dynamics with Spatial Structure: Self Organization around Phage Sinks Can Promote Increased Cell Densities.

Bull JJ, Christensen KA, Scott C, Jack BR, Crandall CJ, Krone SM.

Antibiotics (Basel). 2018 Jan 29;7(1). pii: E8. doi: 10.3390/antibiotics7010008.


Reduced Protein Expression in a Virus Attenuated by Codon Deoptimization.

Jack BR, Boutz DR, Paff ML, Smith BL, Bull JJ, Wilke CO.

G3 (Bethesda). 2017 Sep 7;7(9):2957-2968. doi: 10.1534/g3.117.041020.


Functional Sites Induce Long-Range Evolutionary Constraints in Enzymes.

Jack BR, Meyer AG, Echave J, Wilke CO.

PLoS Biol. 2016 May 3;14(5):e1002452. doi: 10.1371/journal.pbio.1002452. eCollection 2016 May.


Intermediate divergence levels maximize the strength of structure-sequence correlations in enzymes and viral proteins.

Jackson EL, Shahmoradi A, Spielman SJ, Jack BR, Wilke CO.

Protein Sci. 2016 Jul;25(7):1341-53. doi: 10.1002/pro.2920. Epub 2016 Mar 24.


Predicting the Genetic Stability of Engineered DNA Sequences with the EFM Calculator.

Jack BR, Leonard SP, Mishler DM, Renda BA, Leon D, Suárez GA, Barrick JE.

ACS Synth Biol. 2015 Aug 21;4(8):939-43. doi: 10.1021/acssynbio.5b00068. Epub 2015 Jul 1.


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