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Publications Reviewed Journal Publications Culler SJ, Hoff KG, Voelker RB, Berglund JA, and Smolke CD. Functional selection and systematic analysis of intronic splicing elements identify active sequence motifs and associated splicing factors. Nucleic Acids Res. 2010 Aug;38(15):5152-65. DOI:10.1093/nar/gkq248 | Hoff KG, Culler SJ, Nguyen PQ, McGuire RM, Silberg JJ, and Smolke CD. In vivo fluorescent detection of Fe-S clusters coordinated by human GRX2. Chem Biol. 2009 Dec 24;16(12):1299-308. DOI:10.1016/j.chembiol.2009.11.011 | Smolke CD. Building outside of the box: iGEM and the BioBricks Foundation. Nat Biotechnol. 2009 Dec;27(12):1099-102. DOI:10.1038/nbt1209-1099 | Smolke CD. Cell biology. It's the DNA that counts. Science. 2009 May 29;324(5931):1156-7. DOI:10.1126/science.1174843 | Beisel CL and Smolke CD. Design principles for riboswitch function. PLoS Comput Biol. 2009 Apr;5(4):e1000363. DOI:10.1371/journal.pcbi.1000363 | Win MN, Liang JC, and Smolke CD. Frameworks for programming biological function through RNA parts and devices. Chem Biol. 2009 Mar 27;16(3):298-310. DOI:10.1016/j.chembiol.2009.02.011 | Hoff KG, Goodlitt R, Li R, Smolke CD, and Silberg JJ. Fluorescence detection of a protein-bound 2Fe2S cluster. Chembiochem. 2009 Mar 2;10(4):667-70. DOI:10.1002/cbic.200800747 | Bayer TS, Hoff KG, Beisel CL, Lee JJ, and Smolke CD. Synthetic control of a fitness tradeoff in yeast nitrogen metabolism. J Biol Eng. 2009 Jan 2;3:1. DOI:10.1186/1754-1611-3-1 | Beisel CL, Bayer TS, Hoff KG, and Smolke CD. Model-guided design of ligand-regulated RNAi for programmable control of gene expression. Mol Syst Biol. 2008;4:224. DOI:10.1038/msb.2008.62 | Win MN and Smolke CD. Higher-order cellular information processing with synthetic RNA devices. Science. 2008 Oct 17;322(5900):456-60. DOI:10.1126/science.1160311 | Hawkins KM and Smolke CD. Production of benzylisoquinoline alkaloids in Saccharomyces cerevisiae. Nat Chem Biol. 2008 Sep;4(9):564-73. DOI:10.1038/nchembio.105 | Win MN and Smolke CD. A modular and extensible RNA-based gene-regulatory platform for engineering cellular function. Proc Natl Acad Sci U S A. 2007 Sep 4;104(36):14283-8. DOI:10.1073/pnas.0703961104 | Win MN, Klein JS, and Smolke CD. Codeine-binding RNA aptamers and rapid determination of their binding constants using a direct coupling surface plasmon resonance assay. Nucleic Acids Res. 2006;34(19):5670-82. DOI:10.1093/nar/gkl718 | Hawkins KM and Smolke CD. The regulatory roles of the galactose permease and kinase in the induction response of the GAL network in Saccharomyces cerevisiae. J Biol Chem. 2006 May 12;281(19):13485-13492. DOI:10.1074/jbc.M512317200 | Pfleger BF, Pitera DJ, Smolke CD, and Keasling JD. Combinatorial engineering of intergenic regions in operons tunes expression of multiple genes. Nat Biotechnol. 2006 Aug;24(8):1027-32. DOI:10.1038/nbt1226 | Bayer TS and Smolke CD. Programmable ligand-controlled riboregulators of eukaryotic gene expression. Nat Biotechnol. 2005 Mar;23(3):337-43. DOI:10.1038/nbt1069 | Isaacs FJ and Collins JJ. Plug-and-play with RNA. Nat Biotechnol. 2005 Mar;23(3):306-7. DOI:10.1038/nbt0305-306 | Smolke CD and Keasling JD. Effect of gene location, mRNA secondary structures, and RNase sites on expression of two genes in an engineered operon. Biotechnol Bioeng. 2002 Dec 30;80(7):762-76. DOI:10.1002/bit.10434 | Smolke CD and Keasling JD. Effect of copy number and mRNA processing and stabilization on transcript and protein levels from an engineered dual-gene operon. Biotechnol Bioeng. 2002 May 20;78(4):412-24. DOI:10.1002/bit.10218 | Smolke CD, Khlebnikov A, and Keasling JD. Effects of transcription induction homogeneity and transcript stability on expression of two genes in a constructed operon. Appl Microbiol Biotechnol. 2001 Dec;57(5-6):689-96. DOI:10.1007/s002530100812 | Smolke CD, Martin VJ, and Keasling JD. Controlling the metabolic flux through the carotenoid pathway using directed mRNA processing and stabilization. Metab Eng. 2001 Oct;3(4):313-21. DOI:10.1006/mben.2001.0194 | Smolke CD, Carrier TA, and Keasling JD. Coordinated, differential expression of two genes through directed mRNA cleavage and stabilization by secondary structures. Appl Environ Microbiol. 2000 Dec;66(12):5399-405. DOI:10.1128/AEM.66.12.5399-5405.2000 | Please Note: An early online correction to (PNAS. 2007. 104:14283-8) has been published here. We will add the additional PMID above once PNAS has processed the correction. Additional detail on data processing and raw data for (Science. 2008. 322:456-60.) is provided here. Non-Peer-Reviewed Publications Win MN and Smolke CD. RNA as a versatile and powerful platform for engineering genetic regulatory tools. Biotechnol Genet Eng Rev. 2007;24:311-46. DOI:10.1080/02648725.2007.10648106 | Bio FAB Group, Baker D, Church G, Collins J, Endy D, Jacobson J, Keasling J, Modrich P, Smolke C, and Weiss R. Engineering life: building a fab for biology. Sci Am. 2006 Jun;294(6):44-51. DOI:10.1038/scientificamerican0606-44 | Smolke, C. 2005. Molecular switches for cellular sensors. Engineering and Applied Science 4, 28-37 Martin, V.J.J., Smolke, C.D., Keasling, J.D. (2002) Redesigning cells for the production of complex organic molecules. ASM News 68, 336-343. Books and Book Chapters Smolke, C.D., editor (2009) Handbook for Metabolic Pathway Engineering. San Diego: CRC Press. In press. Smolke, C.D., Martin, V.J.J., Keasling, J.D. (2004) Tools for metabolic engineering in Escherichia coli. In: Baneyx, F., editor. Expression Technologies. U.K.: Horizon Scientific Press.