☰

James M. Carothers - Publications

Affiliations: 
2006-2012 Chemical Biology University of California, Berkeley, Berkeley, CA, United States 
Tree Info Similar researchers PubMed Report error

27 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2021 Kiattisewee C, Dong C, Fontana J, Sugianto W, Peralta-Yahya P, Carothers JM, Zalatan JG. Portable bacterial CRISPR transcriptional activation enables metabolic engineering in Pseudomonas putida. Metabolic Engineering. PMID 33930546 DOI: 10.1016/j.ymben.2021.04.002  0.668
2021 Kruyer NS, Sugianto W, Tickman BI, Alba Burbano D, Noireaux V, Carothers JM, Peralta-Yahya P. Membrane Augmented Cell-Free Systems: A New Frontier in Biotechnology. Acs Synthetic Biology. PMID 33749249 DOI: 10.1021/acssynbio.0c00625  0.625
2020 Fontana J, Sparkman-Yager D, Zalatan JG, Carothers JM. Challenges and opportunities with CRISPR activation in bacteria for data-driven metabolic engineering. Current Opinion in Biotechnology. 64: 190-198. PMID 32599515 DOI: 10.1016/J.Copbio.2020.04.005  0.426
2020 Fontana J, Dong C, Kiattisewee C, Chavali VP, Tickman BI, Carothers JM, Zalatan JG. Effective CRISPRa-mediated control of gene expression in bacteria must overcome strict target site requirements. Nature Communications. 11: 1618. PMID 32238808 DOI: 10.1038/S41467-020-15454-Y  0.366
2019 Barajas JF, Wehrs M, To M, Cruickshanks L, Urban R, McKee A, Gladden J, Goh EB, Brown ME, Pierotti D, Carothers JM, Mukhopadhyay A, Keasling JD, Fortman JL, Singer SW, et al. Isolation and Characterization of Bacterial Cellulase Producers for Biomass Deconstruction: A Microbiology Laboratory Course. Journal of Microbiology & Biology Education. 20. PMID 31388393 DOI: 10.1128/Jmbe.V20I2.1723  0.688
2018 Dong C, Fontana J, Patel A, Carothers JM, Zalatan JG. Synthetic CRISPR-Cas gene activators for transcriptional reprogramming in bacteria. Nature Communications. 9: 2489. PMID 29950558 DOI: 10.1038/S41467-018-04901-6  0.362
2018 Fontana J, Voje WE, Zalatan JG, Carothers JM. Prospects for engineering dynamic CRISPR-Cas transcriptional circuits to improve bioproduction. Journal of Industrial Microbiology & Biotechnology. PMID 29740742 DOI: 10.1007/S10295-018-2039-Z  0.362
2018 Fontana J, Dong C, Ham JY, Zalatan JG, Carothers JM. Regulated expression of sgRNAs tunes CRISPRi in E. coli. Biotechnology Journal. e1800069. PMID 29635744 DOI: 10.1002/Biot.201800069  0.359
2016 Hwang C, Carothers JM. Label-free selection of RNA aptamers for metabolic engineering. Methods (San Diego, Calif.). PMID 27339940 DOI: 10.1016/J.Ymeth.2016.06.016  0.48
2016 Burke CR, Carothers JM. RNA-Based Molecular Sensors for Biosynthetic Pathway Design, Evolution, and Optimization Biotechnology For Biofuel Production and Optimization. 117-138. DOI: 10.1016/B978-0-444-63475-7.00005-4  0.356
2016 Beck DAC, Carothers JM, Subramanian V, Pfaendtner J. Data science: Accelerating innovation and discovery in chemical engineering Aiche Journal. DOI: 10.1002/Aic.15192  0.314
2015 Sparkman-Yager D, Correa-Rojas RA, Carothers JM. Kinetic folding design of aptazyme-regulated expression devices as riboswitches for metabolic engineering. Methods in Enzymology. 550: 321-40. PMID 25605393 DOI: 10.1016/Bs.Mie.2014.10.038  0.434
2015 Thimmaiah T, Voje WE, Carothers JM. Computational design of RNA parts, devices, and transcripts with kinetic folding algorithms implemented on multiprocessor clusters. Methods in Molecular Biology (Clifton, N.J.). 1244: 45-61. PMID 25487092 DOI: 10.1007/978-1-4939-1878-2_3  0.461
2015 Stevens JT, Carothers JM. Designing RNA-based genetic control systems for efficient production from engineered metabolic pathways. Acs Synthetic Biology. 4: 107-15. PMID 25314371 DOI: 10.1021/Sb400201U  0.411
2014 Goler JA, Carothers JM, Keasling JD. Dual-selection for evolution of in vivo functional aptazymes as riboswitch parts. Methods in Molecular Biology (Clifton, N.J.). 1111: 221-35. PMID 24549623 DOI: 10.1007/978-1-62703-755-6_16  0.722
2013 Carothers JM. Design-driven, multi-use research agendas to enable applied synthetic biology for global health. Systems and Synthetic Biology. 7: 79-86. PMID 24432145 DOI: 10.1007/S11693-013-9118-2  0.383
2013 Cambray G, Guimaraes JC, Mutalik VK, Lam C, Mai QA, Thimmaiah T, Carothers JM, Arkin AP, Endy D. Measurement and modeling of intrinsic transcription terminators. Nucleic Acids Research. 41: 5139-48. PMID 23511967 DOI: 10.1093/Nar/Gkt163  0.325
2012 Zhang F, Carothers JM, Keasling JD. Design of a dynamic sensor-regulator system for production of chemicals and fuels derived from fatty acids. Nature Biotechnology. 30: 354-9. PMID 22446695 DOI: 10.1038/Nbt.2149  0.666
2011 Carothers JM, Goler JA, Juminaga D, Keasling JD. Model-driven engineering of RNA devices to quantitatively program gene expression. Science (New York, N.Y.). 334: 1716-9. PMID 22194579 DOI: 10.1126/Science.1212209  0.716
2010 Carothers JM, Goler JA, Kapoor Y, Lara L, Keasling JD. Selecting RNA aptamers for synthetic biology: investigating magnesium dependence and predicting binding affinity. Nucleic Acids Research. 38: 2736-47. PMID 20159999 DOI: 10.1093/Nar/Gkq082  0.707
2009 Carothers JM, Goler JA, Keasling JD. Chemical synthesis using synthetic biology. Current Opinion in Biotechnology. 20: 498-503. PMID 19720519 DOI: 10.1016/J.Copbio.2009.08.001  0.715
2007 Hazen RM, Griffin PL, Carothers JM, Szostak JW. Functional information and the emergence of biocomplexity Proceedings of the National Academy of Sciences of the United States of America. 104: 8574-8581. PMID 17494745 DOI: 10.1073/Pnas.0701744104  0.506
2006 Carothers JM, Oestreich SC, Szostak JW. Aptamers selected for higher-affinity binding are not more specific for the target ligand Journal of the American Chemical Society. 128: 7929-7937. PMID 16771507 DOI: 10.1021/Ja060952Q  0.592
2006 Carothers JM, Davis JH, Chou JJ, Szostak JW. Solution structure of an informationally complex high-affinity RNA aptamer to GTP. Rna (New York, N.Y.). 12: 567-79. PMID 16510427 DOI: 10.1261/Rna.2251306  0.56
2006 Carothers JM, Szostak JW. In Vitro Selection of Functional Oligonucleotides and the Origins of Biochemical Activity The Aptamer Handbook: Functional Oligonucleotides and Their Applications. 1-28. DOI: 10.1002/3527608192.ch1  0.464
2005 Plummer KA, Carothers JM, Yoshimura M, Szostak JW, Verdine GL. In vitro selection of RNA aptamers against a composite small molecule-protein surface. Nucleic Acids Research. 33: 5602-10. PMID 16199752 DOI: 10.1093/Nar/Gki867  0.57
2004 Carothers JM, Oestreich SC, Davis JH, Szostak JW. Informational complexity and functional activity of RNA structures. Journal of the American Chemical Society. 126: 5130-7. PMID 15099096 DOI: 10.1021/Ja031504A  0.566
Show low-probability matches.