SynBERC publications

Title Author(s) Publication name Pub. datesort icon Link to publication
A Feedback Quenched Oscillator Produces Turing Patterning with One Diffuser Justin Hsia, William J. Holtz, Daniel C. Huang, Murat Arcak, Michel M. Maharbiz PLoS Computational Biology 2012-01-26
Model-driven engineering of RNA devices to quantitatively-program gene expression James M. Carothers, Jonathan A. Goler, Darmawi Juminaga, Jay D. Keasling Science 2011-12-23
Metabolic engineering of microbial pathways for advanced biofuels production Zhang F, Rodriguez S, Keasling JD. Current Opinions in Biotechnology 2011-12-01
Synthesis of three advanced biofuels from ionic liquid-pretreated switchgrass using engineered Escherichia coli Bokinsky G, Peralta-Yahya PP, George A, Holmes BM, Steen EJ, Dietrich J, Soon Lee T, Tullman-Ercek D, Voigt CA, Simmons BA, Keasling JD PNAS 2011-11-28
Scaffold number in yeast signaling system sets tradeoff between system output and dynamic range Thomson TM, Benjamin KR, Bush A, Love T, Pincus D, Resnekov O, Yu RC, Gordon A, Colman-Lerner A, Endy D, Brent R. PNAS 2011-11-23
Remodeling the isoprenoid pathway in tobacco by expressing the cytoplasmic mevalonate pathway in chloroplasts Kumar S, Hahn FM, Baidoo E, Kahlon TS, Wood DF, McMahan CM, Cornish K, Keasling JD, Daniell H, Whalen MC. Metabolic Engineering 2011-11-21
Evidence-Based Annotation of Gene Function in Shewanella oneidensis MR-1 Using Genome-Wide Fitness Profiling across 121 Conditions Adam Deutschbauer, Morgan N. Price, Kelly M. Wetmore, Wenjun Shao, Jason K. Baumohl, Zhuchen Xu, Michelle Nguyen, Raquel Tamse, Ronald W. Davis, Adam P. Arkin PLoS Genetics 2011-11-17
Overlapping photoprotective function of vitamin E and carotenoids in Chlamydomonas Li Z, Keasling JD, Niyogi KK. Plant Physiology 2011-11-11
Bayesian multiple-instance motif discovery with BAMBI: inference of recombinase and transcription factor binding sites Jajamovich GH, Wang X, Arkin AP, Samoilov MS. Nucleic Acids Research 2011-11-01
Large-scale DNA editing of retrotransposons accelerates mammalian genome evolution Carmi S, Church GM, Levanon EY. Nature Communications 2011-11-01
Modular electron transfer circuits for synthetic biology: insulation of an engineered biohydrogen pathway Agapakis CM, Silver PA. Bioengineering Bugs 2011-11-01
Engineering of bacterial methyl ketone synthesis for biofuels Goh EB, Baidoo EE, Keasling JD, Beller HR. Appplied Environmental Microbiology 2011-10-28
Parts plus pipes: Synthetic biology approaches to metabolic engineering Boyle PM, Silver PA. Metabolic Engineering 2011-10-25
Modular Engineering of L-Tyrosine Production in Escherichia coli. Juminaga D, Baidoo EE, Redding-Johanson AM, Batth TS, Burd H, Mukhopadhyay A, Petzold CJ, Keasling JD. Applied Environmental Microbiology 2011-10-21
Systematic mapping of two component response regulators to gene targets in a model sulfate reducing bacterium Rajeev L, Luning EG, Dehal PS, Price MN, Arkin AP, Mukhopadhyay A. Genome Biology 2011-10-12
Overview of DNA sequencing strategies Shendure JA, Porreca GJ, Church GM, Gardner AF, Hendrickson CL, Kieleczawa J, Slatko BE. Current Protocols in Molecular Biology 2011-10-01
Toward rational design of bacterial genomes Cambray G, Mutalik VK, Arkin AP. Current Protocols in Molecular Biology 2011-10-01
Identification and microbial production of a terpene-based advanced biofuel Peralta-Yahya PP, Ouellet M, Chan R, Mukhopadhyay A, Keasling JD, Lee TS. Nature Communications 2011-09-27
BglBrick vectors and datasheets: A synthetic biology platform for gene expression. Lee TS, Krupa RA, Zhang F, Hajimorad M, Holtz WJ, Prasad N, Lee SK, Keasling JD. Journal of Biological Engineering 2011-09-20
Rational engineering of Escherichia coli strains for plasmid biopharmaceutical manufacturing. Gon Biotechnology Journal 2011-09-13
Light-based feedback for controlling intracellular signaling dynamics Toettcher JE, Gong D, Lim WA, Weiner OD Nature Methods 2011-09-11
A mechanism for tunable autoinhibition in the structure of a human Ca2+/calmodulin- dependent kinase II holoenzyme Chao LH, Stratton MM, Lee IH, Rosenberg OS, Levitz J, Mandell DJ, Kortemme T, Groves JT, Schulman H, Kuriyan J. Cell Press 2011-09-02
Multi-input RNAi-based logic circuit for identification of specific cancer cells Xie Z, Wroblewska L, Prochazka L, Weiss R, Benenson Y. Science 2011-09-02
Barcoding bias in high-throughput multiplex sequencing of miRNA Alon S, Vigneault F, Eminaga S, Christodoulou DC, Seidman JG, Church GM, Eisenberg E. Genome Research 2011-09-01
Optimization of a heterologous mevalonate pathway through the use of variant HMG-CoA reductases Ma SM, Garcia DE, Redding-Johanson AM, Friedland GD, Chan R, Batth TS, Haliburton JR, Chivian D, Keasling JD, Petzold CJ, Lee TS, Chhabra SR. Metabolic Engineering 2011-09-01