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Jongmin Kim, Ph.D. - Publications

Affiliations: 
Biology California Institute of Technology, Pasadena, CA 
Area:
biomolecular computation
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28 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
2022 McCutcheon G, Chaudhary S, Hong S, Park D, Kim J, Green AA. Design of Ribocomputing Devices for Complex Cellular Logic. Methods in Molecular Biology (Clifton, N.J.). 2518: 65-86. PMID 35666439 DOI: 10.1007/978-1-0716-2421-0_4  0.31
2022 van der Linden AJ, Pieters PA, Bartelds MW, Nathalia BL, Yin P, Huck WTS, Kim J, de Greef TFA. DNA Input Classification by a Riboregulator-Based Cell-Free Perceptron. Acs Synthetic Biology. 11: 1510-1520. PMID 35381174 DOI: 10.1021/acssynbio.1c00596  0.445
2021 Pieters PA, Nathalia BL, van der Linden AJ, Yin P, Kim J, Huck WTS, de Greef TFA. Cell-Free Characterization of Coherent Feed-Forward Loop-Based Synthetic Genetic Circuits. Acs Synthetic Biology. PMID 34061505 DOI: 10.1021/acssynbio.1c00024  0.391
2020 Kim J, Franco E. RNA nanotechnology in synthetic biology. Current Opinion in Biotechnology. 63: 135-141. PMID 32035339 DOI: 10.1016/J.Copbio.2019.12.016  0.555
2020 Paulino NMG, Foo M, Kim J, Bates DG. On the stability of nucleic acid feedback control systems Automatica. 119: 109103. DOI: 10.1016/J.Automatica.2020.109103  0.347
2019 Kim J, Zhou Y, Carlson PD, Teichmann M, Chaudhary S, Simmel FC, Silver PA, Collins JJ, Lucks JB, Yin P, Green AA. De novo-designed translation-repressing riboregulators for multi-input cellular logic. Nature Chemical Biology. PMID 31686032 DOI: 10.1038/S41589-019-0388-1  0.515
2019 Jin M, Garreau de Loubresse N, Kim Y, Kim J, Yin P. Programmable CRISPR-Cas Repression, Activation, and Computation with Sequence-Independent Targets and Triggers. Acs Synthetic Biology. PMID 31290648 DOI: 10.1021/Acssynbio.9B00141  0.489
2019 Jeong D, Klocke M, Agarwal S, Kim J, Choi S, Franco E, Kim J. Cell-Free Synthetic Biology Platform for Engineering Synthetic Biological Circuits and Systems. Methods and Protocols. 2. PMID 31164618 DOI: 10.3390/mps2020039  0.536
2019 Green LN, Subramanian HKK, Mardanlou V, Kim J, Hariadi RF, Franco E. Autonomous dynamic control of DNA nanostructure self-assembly. Nature Chemistry. PMID 31011170 DOI: 10.1038/S41557-019-0251-8  0.727
2019 Paulino NMG, Foo M, Kim J, Bates DG. Robustness analysis of a nucleic acid controller for a dynamic biomolecular process using the structured singular value Journal of Process Control. 78: 34-44. DOI: 10.1016/J.Jprocont.2019.02.009  0.338
2017 Kim J, Yin P, Green AA. Ribocomputing: Cellular Logic Computation Using RNA Devices. Biochemistry. PMID 29256603 DOI: 10.1021/Acs.Biochem.7B01072  0.44
2017 Green AA, Kim J, Ma D, Silver PA, Collins JJ, Yin P. Complex cellular logic computation using ribocomputing devices. Nature. PMID 28746304 DOI: 10.1038/Nature23271  0.52
2017 Mardanlou V, Yaghoubi KC, Green LN, Subramanian HKK, Hariadi RF, Kim J, Franco E. A coarse-grained model captures the temporal evolution of DNA nanotube length distributions Natural Computing. 17: 183-199. DOI: 10.1007/S11047-017-9657-7  0.691
2016 Cuba Samaniego C, Giordano G, Kim J, Blanchini F, Franco E. Molecular titration promotes oscillations and bistability in minimal network models with monomeric regulators. Acs Synthetic Biology. PMID 26797494 DOI: 10.1021/Acssynbio.5B00176  0.561
2016 Schwarz-Schilling M, Kim J, Cuba C, Weitz M, Franco E, Simmel FC. Building a Synthetic Transcriptional Oscillator. Methods in Molecular Biology (Clifton, N.J.). 1342: 185-99. PMID 26254924 DOI: 10.1007/978-1-4939-2957-3_10  0.598
2016 Schwarz-Schilling M, Kim J, Cuba C, Weitz M, Franco E, Simmel FC. Building a synthetic transcriptional oscillat Methods in Molecular Biology. 1342: 185-199. DOI: 10.1007/978-1-4939-2957-3_10  0.454
2015 Green LN, Subramanian HK, Mardanlou V, Kim J, Hariadi RF, Franco E. 72 Dynamic self-assembly of DNA nanotubes. Journal of Biomolecular Structure & Dynamics. 33: 46-7. PMID 26103283 DOI: 10.1080/07391102.2015.1032689  0.704
2015 Takahashi MK, Chappell J, Hayes CA, Sun ZZ, Kim J, Singhal V, Spring KJ, Al-Khabouri S, Fall CP, Noireaux V, Murray RM, Lucks JB. Rapidly characterizing the fast dynamics of RNA genetic circuitry with cell-free transcription-translation (TX-TL) systems. Acs Synthetic Biology. 4: 503-15. PMID 24621257 DOI: 10.1021/Sb400206C  0.362
2014 Yordanov B, Kim J, Petersen RL, Shudy A, Kulkarni VV, Phillips A. Computational design of nucleic acid feedback control circuits. Acs Synthetic Biology. 3: 600-16. PMID 25061797 DOI: 10.1021/Sb400169S  0.399
2014 Kulkarni V, Kharisov E, Hovakimyan N, Kim J. Load capacity improvements in nucleic acid based systems using partially open feedback control. Acs Synthetic Biology. 3: 617-26. PMID 24946099 DOI: 10.1021/Sb5000675  0.368
2014 Kim J, Khetarpal I, Sen S, Murray RM. Synthetic circuit for exact adaptation and fold-change detection. Nucleic Acids Research. 42: 6078-89. PMID 24728988 DOI: 10.1093/Nar/Gku233  0.329
2014 Siegal-Gaskins D, Tuza ZA, Kim J, Noireaux V, Murray RM. Gene circuit performance characterization and resource usage in a cell-free "breadboard". Acs Synthetic Biology. 3: 416-25. PMID 24670245 DOI: 10.1021/Sb400203P  0.364
2014 Weitz M, Kim J, Kapsner K, Winfree E, Franco E, Simmel FC. Diversity in the dynamical behaviour of a compartmentalized programmable biochemical oscillator Nature Chemistry. 6: 295-302. PMID 24651195 DOI: 10.1038/Nchem.1923  0.674
2012 Subsoontorn P, Kim J, Winfree E. Ensemble bayesian analysis of bistability in a synthetic transcriptional switch Acs Synthetic Biology. 1: 299-316. PMID 23651285 DOI: 10.1021/Sb300018H  0.626
2011 Franco E, Friedrichs E, Kim J, Jungmann R, Murray R, Winfree E, Simmel FC. Timing molecular motion and production with a synthetic transcriptional clock Proceedings of the National Academy of Sciences of the United States of America. 108: E784-E793. PMID 21921236 DOI: 10.1073/Pnas.1100060108  0.7
2011 Kim J, Winfree E. Synthetic in vitro transcriptional oscillators Molecular Systems Biology. 7. PMID 21283141 DOI: 10.1038/Msb.2010.119  0.637
2010 Friedrichs E, Kim J, Jungmann R, Franco E, Murray R, Winfree E, Simmel FC. Driving DNA Tweezers with an in vitro Transcriptional Oscillator Biophysical Journal. 98: 430a-431a. DOI: 10.1016/J.Bpj.2009.12.2334  0.701
2006 Kim J, White KS, Winfree E. Construction of an in vitro bistable circuit from synthetic transcriptional switches Molecular Systems Biology. 2. PMID 17170763 DOI: 10.1038/Msb4100099  0.64
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