Items where Research Group Name is "Jacobs Institute for Molecular Engineering for Medicine"

2021

Nichols, Aaron L. and Blumenfeld, Zack and Fan, Chengcheng et al. (2021) Fluorescence Activation Mechanism and Imaging of Drug Permeation with New Sensors for Smoking-Cessation Ligands. . doi:10.1101/2021.10.04.463082. (Unpublished) https://resolver.caltech.edu/CaltechAUTHORS:20211008-224629724

Li, Hongyi and Heath, John E and Trippett, James S. et al. (2021) Engineering Viral Vectors for Acoustically Targeted Gene Delivery. . (Unpublished) https://resolver.caltech.edu/CaltechAUTHORS:20210729-152223015

Wu, Wei-Li and Adame, Mark D. and Liou, Chia-Wei et al. (2021) Microbiota regulate social behaviour via stress response neurons in the brain. Nature, 595 (7867). pp. 409-414. ISSN 0028-0836. PMCID PMC8346519. doi:10.1038/s41586-021-03669-y. https://resolver.caltech.edu/CaltechAUTHORS:20210706-202344110

Breunig, Stephanie L. and Tirrell, David A. (2021) Incorporation of proline analogs into recombinant proteins expressed in Escherichia coli. In: Synthetic and Enzymatic Modifications of the Peptide Backbone. Methods in Enzymology. No.656. Academic Press , Cambridge, MA, pp. 545-571. ISBN 978-0-12-821253-0. https://resolver.caltech.edu/CaltechAUTHORS:20210821-142002730

Liu, Zhen and Arnold, Frances H. (2021) New-to-nature chemistry from old protein machinery: carbene and nitrene transferases. Current Opinion in Biotechnology, 69 . pp. 43-51. ISSN 0958-1669. PMCID PMC8225731. https://resolver.caltech.edu/CaltechAUTHORS:20210104-164231981

Savela, Emily S. and Winnett, Alexander and Romano, Anna E. et al. (2021) Quantitative SARS-CoV-2 viral-load curves in paired saliva and nasal swabs inform appropriate respiratory sampling site and analytical test sensitivity required for earliest viral detection. . doi:10.1101/2021.04.02.21254771. (Unpublished) https://resolver.caltech.edu/CaltechAUTHORS:20210407-080559241

Laccetti, Benjamin and Kornfield, Julia (2021) Ballistic delivery of compounds to inner layers of the cornea is limited by tough mechanical properties of stromal tissue. Journal of the Mechanical Behavior of Biomedical Materials, 115 . Art. No. 104246. ISSN 1751-6161. https://resolver.caltech.edu/CaltechAUTHORS:20201208-105038922

Loffredo, Fausta and Tammaro, Loredana and Di Luccio, Tiziana et al. (2021) Effect of tungsten disulfide nanotubes on crystallization of polylactide under uniaxial deformation and annealing. Functional Composite Materials, 2 (1). Art. No. 3. ISSN 2522-5774. PMCID PMC8198810. doi:10.1186/s42252-021-00016-2. https://resolver.caltech.edu/CaltechAUTHORS:20210126-142455748

2020

Winnett, Alexander and Cooper, Matthew M. and Shelby, Natasha et al. (2020) SARS-CoV-2 Viral Load in Saliva Rises Gradually and to Moderate Levels in Some Humans. . (Unpublished) https://resolver.caltech.edu/CaltechAUTHORS:20201211-113537700

Dunham, Noah P. and Arnold, Frances H. (2020) Nature’s Machinery, Repurposed: Expanding the Repertoire of Iron-Dependent Oxygenases. ACS Catalysis, 10 (20). pp. 12239-12255. ISSN 2155-5435. PMCID PMC7710332. https://resolver.caltech.edu/CaltechAUTHORS:20200929-124227563

Jia, Zhi-Jun and Gao, Shilong and Arnold, Frances H. (2020) Enzymatic Primary Amination of Benzylic and Allylic C(sp³)–H Bonds. Journal of the American Chemical Society, 142 (23). pp. 10279-10283. ISSN 0002-7863. https://resolver.caltech.edu/CaltechAUTHORS:20200526-140743903

Jue, Erik and Ismagilov, Rustem F. (2020) Commercial stocks of SARS-CoV-2 RNA may report low concentration values, leading to artificially increased apparent sensitivity of diagnostic assays. . (Unpublished) https://resolver.caltech.edu/CaltechAUTHORS:20200519-071416134

Szablowski, Jerzy and Lee-Gosselin, Audrey and Lue, Brian et al. (2020) Acoustically Targeted Chemogenetics for Noninvasive Control of Neural Circuits. Biological Psychiatry, 87 (9). S95. ISSN 0006-3223. https://resolver.caltech.edu/CaltechAUTHORS:20200507-125032304

Rolando, Justin C. and Jue, Erik and Barlow, Jacob T. et al. (2020) Real-time kinetics and high-resolution melt curves in single-molecule digital LAMP to differentiate and study specific and non-specific amplification. Nucleic Acids Research, 48 (7). Art. No. e42. ISSN 0305-1048. PMCID PMC7144905. https://resolver.caltech.edu/CaltechAUTHORS:20200302-155937790

Schoepp, Nathan G. and Liaw, Eric J. and Winnett, Alexander et al. (2020) Differential DNA accessibility to polymerase enables 30-minute phenotypic β-lactam antibiotic susceptibility testing of carbapenem-resistant Enterobacteriaceae. PLoS Biology, 18 (3). Art. No. 3000652. ISSN 1545-7885. PMCID PMC7081982. https://resolver.caltech.edu/CaltechAUTHORS:20200320-065850359

Savela, Emily S. and Schoepp, Nathan G. and Cooper, Matthew M. et al. (2020) Surfactant-enhanced DNA accessibility to nuclease accelerates phenotypic β-lactam antibiotic susceptibility testing of Neisseria gonorrhoeae. PLoS Biology, 18 (3). Art. No. 3000651. ISSN 1545-7885. PMCID PMC7081974. https://resolver.caltech.edu/CaltechAUTHORS:20200319-141031875

Bogatyrev, Said R. and Rolando, Justin C. and Ismagilov, Rustem F. (2020) Self-reinoculation with fecal flora changes microbiota density and composition leading to an altered bile-acid profile in the mouse small intestine. Microbiome, 8 . Art. No. 19. ISSN 2049-2618. PMCID PMC7017497. https://resolver.caltech.edu/CaltechAUTHORS:20200212-152816065

Jue, Erik and Witters, Daan and Ismagilov, Rustem F. (2020) Two-phase wash to solve the ubiquitous contaminant-carryover problem in commercial nucleic-acid extraction kits. Scientific Reports, 10 . Art. No. 1940. ISSN 2045-2322. PMCID PMC7004994. https://resolver.caltech.edu/CaltechAUTHORS:20200206-125057522

Bogatyrev, Said R. and Ismagilov, Rustem F. (2020) Quantitative microbiome profiling in lumenal and tissue samples with broad coverage and dynamic range via a single-step 16S rRNA gene DNA copy quantification and amplicon barcoding. . (Unpublished) https://resolver.caltech.edu/CaltechAUTHORS:20200123-094353991

2019

Fasan, Rudi and Kan, S. B. Jennifer and Zhao, Huimin (2019) A Continuing Career in Biocatalysis: Frances H. Arnold. ACS Catalysis, 9 (11). pp. 9775-9788. ISSN 2155-5435. PMCID PMC7390471. https://resolver.caltech.edu/CaltechAUTHORS:20190917-160539760

Porter, Michael K. and Steinberg, Asher Preska and Ismagilov, Rustem F. (2019) Interplay of motility and polymer-driven depletion forces in the initial stages of bacterial aggregation. Soft Matter, 15 (35). pp. 7071-7079. ISSN 1744-683X. https://resolver.caltech.edu/CaltechAUTHORS:20190823-085722494

Preska Steinberg, Asher and Wang, Zhen-Gang and Ismagilov, Rustem F. (2019) Food Polyelectrolytes Compress the Colonic Mucus Hydrogel by a Donnan Mechanism. Biomacromolecules, 20 (7). pp. 2675-2683. ISSN 1525-7797. https://resolver.caltech.edu/CaltechAUTHORS:20190619-091518942

Wu, Zachary and Kan, S. B. Jennifer and Lewis, Russell D. et al. (2019) Machine learning-assisted directed protein evolution with combinatorial libraries. Proceedings of the National Academy of Sciences of the United States of America, 116 (18). pp. 8852-8858. ISSN 0027-8424. PMCID PMC6500146. https://resolver.caltech.edu/CaltechAUTHORS:20190415-082330973

Huang, Xiongyi and Garcia-Borràs, Marc and Miao, Kun et al. (2019) A Biocatalytic Platform for Synthesis of Chiral α-Trifluoromethylated Organoborons. ACS Central Science, 5 (2). pp. 270-276. ISSN 2374-7943. PMCID PMC6396380. https://resolver.caltech.edu/CaltechAUTHORS:20181023-102546587

Cho, Inha and Jia, Zhi-Jun and Arnold, Frances H. (2019) Genetically Tunable Enzymatic C‒H Amidation for Lactam Synthesis. . (Unpublished) https://resolver.caltech.edu/CaltechAUTHORS:20190312-131401661

Preska Steinberg, Asher and Datta, Sujit S. and Naragon, Thomas et al. (2019) High-molecular-weight polymers from dietary fiber drive aggregation of particulates in the murine small intestine. eLife, 8 . Art. No. e40387. ISSN 2050-084X. PMCID PMC6342521. https://resolver.caltech.edu/CaltechAUTHORS:20181210-140412486

Rolando, Justin C. and Jue, Erik and Schoepp, Nathan G. et al. (2019) Real-Time, Digital LAMP with Commercial Microfluidic Chips Reveals the Interplay of Efficiency, Speed, and Background Amplification as a Function of Reaction Temperature and Time. Analytical Chemistry, 91 (1). pp. 1034-1042. ISSN 0003-2700. PMCID PMC6322147. https://resolver.caltech.edu/CaltechAUTHORS:20181221-105356677

2018

Almhjell, Patrick J. and Boville, Christina E. and Arnold, Frances H. (2018) Engineering enzymes for noncanonical amino acid synthesis. Chemical Society Reviews, 47 (24). pp. 8980-8997. ISSN 0306-0012. PMCID PMC6434697. https://resolver.caltech.edu/CaltechAUTHORS:20181008-141850453

Ramachandran, Karthik and Di Luccio, Tiziana and Ailianou, Artemis et al. (2018) Crimping-induced structural gradients explain the lasting strength of poly L-lactide bioresorbable vascular scaffolds during hydrolysis. Proceedings of the National Academy of Sciences of the United States of America, 115 (41). pp. 10239-10244. ISSN 0027-8424. PMCID PMC6187115. https://resolver.caltech.edu/CaltechAUTHORS:20180918-095157859

Khazaei, Tahmineh and Barlow, Jacob T. and Schoepp, Nathan G. et al. (2018) RNA markers enable phenotypic test of antibiotic susceptibility in Neisseria gonorrhoeae after 10 minutes of ciprofloxacin exposure. Scientific Reports, 8 . Art. No. 11606. ISSN 2045-2322. PMCID PMC6072703. https://resolver.caltech.edu/CaltechAUTHORS:20180802-093834589

Lu, George J. and Farhadi, Arash and Mukherjee, Arnab et al. (2018) Proteins, air and water: reporter genes for ultrasound and magnetic resonance imaging. Current Opinion in Chemical Biology, 45 . pp. 57-63. ISSN 1367-5931. PMCID PMC6076850. https://resolver.caltech.edu/CaltechAUTHORS:20180322-135005180

Boville, Christina E. and Romney, David K. and Almhjell, Patrick J. et al. (2018) Improved synthesis of 4-cyanotryptophan and other tryptophan analogs in aqueous solvent using variants of TrpB from Thermotoga maritima. Journal of Organic Chemistry, 83 (14). pp. 7447-7452. ISSN 0022-3263. PMCID PMC6054569. https://resolver.caltech.edu/CaltechAUTHORS:20180413-091558960

Szablowski, Jerzy O. and Lee-Gosselin, Audrey and Lue, Brian et al. (2018) Acoustically Targeted Chemogenetics for Noninvasive Control of Neural Circuits. Nature Biomedical Engineering, 2 (7). pp. 475-484. ISSN 2157-846X. https://resolver.caltech.edu/CaltechAUTHORS:20180108-133221204

Maresca, David and Lakshmanan, Anupama and Abedi, Mohamad et al. (2018) Biomolecular Ultrasound and Sonogenetics. Annual Review of Chemical and Biomolecular Engineering, 9 . pp. 229-252. ISSN 1947-5438. PMCID PMC6086606. https://resolver.caltech.edu/CaltechAUTHORS:20180330-152125173

Ramachandran, Karthik and Miscioscia, Riccardo and De Filippo, Giovanni et al. (2018) Tube Expansion Deformation Enables In Situ Synchrotron X-ray Scattering Measurements during Extensional Flow-Induced Crystallization of Poly l-Lactide Near the Glass Transition. Polymers, 10 (3). Art. No. 288. ISSN 2073-4360. PMCID PMC6415077. https://resolver.caltech.edu/CaltechAUTHORS:20180430-101112370

2017

Schoepp, Nathan G. and Schlappi, Travis S. and Curtis, Matthew S. et al. (2017) Rapid pathogen-specific phenotypic antibiotic susceptibility testing using digital LAMP quantification in clinical samples. Science Translational Medicine, 9 (410). Art. No. eaal3693. ISSN 1946-6234. PMCID PMC6765391. https://resolver.caltech.edu/CaltechAUTHORS:20161213-131157930

Piraner, Dan I. and Farhadi, Arash and Davis, Hunter C. et al. (2017) Going Deeper: Biomolecular Tools for Acoustic and Magnetic Imaging and Control of Cellular Function. Biochemistry, 56 (39). pp. 5202-5209. ISSN 0006-2960. PMCID PMC6058970. https://resolver.caltech.edu/CaltechAUTHORS:20170814-132937862

Brandenberg, Oliver F. and Fasan, Rudi and Arnold, Frances H. (2017) Exploiting and engineering hemoproteins for abiological carbene and nitrene transfer reactions. Current Opinion in Biotechnology, 47 . pp. 102-111. ISSN 0958-1669. PMCID PMC5617781. https://resolver.caltech.edu/CaltechAUTHORS:20170713-135322808

Pompano, Rebecca R. and Chiang, Andrew H. and Kastrup, Christian J. et al. (2017) Conceptual and Experimental Tools to Understand Spatial Effects and Transport Phenomena in Nonlinear Biochemical Networks Illustrated with Patchy Switching. Annual Review of Biochemistry, 86 . pp. 333-356. ISSN 0066-4154. https://resolver.caltech.edu/CaltechAUTHORS:20170628-083437438

2016

Kan, S. B. Jennifer and Lewis, Russell D. and Chen, Kai et al. (2016) Directed evolution of cytochrome c for carbon–silicon bond formation: Bringing silicon to life. Science, 354 (6315). pp. 1048-1051. ISSN 0036-8075. PMCID PMC5243118. https://resolver.caltech.edu/CaltechAUTHORS:20161004-120856195

Schoepp, Nathan G. and Khorosheva, Eugenia M. and Schlappi, Travis S. et al. (2016) Digital Quantification of DNA Replication and Chromosome Segregation Enables Determination of Antimicrobial Susceptibility after only 15 Minutes of Antibiotic Exposure. Angewandte Chemie International Edition in English, 55 (33). pp. 9557-9561. ISSN 0570-0833. PMCID PMC5215780. https://resolver.caltech.edu/CaltechAUTHORS:20160705-083001025

Herger, Michael and van Roye, Paul and Romney, David K. et al. (2016) Synthesis of β-Branched Tryptophan Analogues Using an Engineered Subunit of Tryptophan Synthase. Journal of the American Chemical Society, 138 (27). pp. 8388-8391. ISSN 0002-7863. PMCID PMC4948191. https://resolver.caltech.edu/CaltechAUTHORS:20160706-081124141

Tremblay, Jacob R. and LeBon, Jeanne M. and Luo, Angela et al. (2016) In Vitro Colony Assays for Characterizing Tri-potent Progenitor Cells Isolated from the Adult Murine Pancreas. Journal of Visualized Experiments (112). Art. No. e54016. ISSN 1940-087X. PMCID PMC4927776. https://resolver.caltech.edu/CaltechAUTHORS:20160705-152413540

2015

Buller, Andrew R. and Brinkmann-Chen, Sabine and Romney, David K. et al. (2015) Directed evolution of the tryptophan synthase β-subunit for stand-alone function recapitulates allosteric activation. Proceedings of the National Academy of Sciences of the United States of America, 112 (47). pp. 14599-14604. ISSN 0027-8424. PMCID PMC4664345. https://resolver.caltech.edu/CaltechAUTHORS:20151112-080107171

Farwell, Christopher C. and Zhang, Ruijie K. and McIntosh, John A. et al. (2015) Enantioselective Enzyme-Catalyzed Aziridination Enabled by Active-Site Evolution of a Cytochrome P450. ACS Central Science, 1 (2). pp. 89-93. ISSN 2374-7951. PMCID PMC4571169. https://resolver.caltech.edu/CaltechAUTHORS:20150504-091714076

2013

McIntosh, John A. and Coelho, Pedro S. and Farwell, Christopher C. et al. (2013) Enantioselective Intramolecular C-H Amination Catalyzed by Engineered Cytochrome P450 Enzymes In Vitro and In Vivo. Angewandte Chemie International Edition, 52 (35). pp. 9309-9312. ISSN 1433-7851. PMCID PMC3988694. https://resolver.caltech.edu/CaltechAUTHORS:20131003-083816907

2012

Brustad, Eric M. and Lelyveld, Victor S. and Snow, Christopher D. et al. (2012) Structure-Guided Directed Evolution of Highly Selective P450-Based Magnetic Resonance Imaging Sensors for Dopamine and Serotonin. Journal of Molecular Biology, 422 (2). pp. 245-262. ISSN 0022-2836. PMCID PMC3418479. https://resolver.caltech.edu/CaltechAUTHORS:20121030-144039360

2011

Ting, Christina L. and Wu, Jianzhong and Wang, Zhen-Gang (2011) Thermodynamic basis for the genome to capsid charge relationship in viral encapsidation. Proceedings of the National Academy of Sciences of the United States of America, 108 (41). pp. 16986-16991. ISSN 0027-8424. PMCID PMC3193252. https://resolver.caltech.edu/CaltechAUTHORS:20111109-073727841

2010

Mattson, Matthew S. and Huynh, Joyce and Wiseman, Meredith et al. (2010) An In Vitro Intact Globe Expansion Method for Evaluation of Cross-linking Treatments. Investigative Ophthalmology and Visual Science, 51 (6). pp. 3120-3128. ISSN 0146-0404. PMCID PMC2891471. https://resolver.caltech.edu/CaltechAUTHORS:20100609-094136042

2009

Kim, Jin-Hong and Kushiro, Keiichiro and Graham, Nicholas A. et al. (2009) Tunable interplay between epidermal growth factor and cell–cell contact governs the spatial dynamics of epithelial growth. Proceedings of the National Academy of Sciences of the United States of America, 106 (27). pp. 11149-11153. ISSN 0027-8424. PMCID PMC2708686. https://resolver.caltech.edu/CaltechAUTHORS:20090825-140208599

Beisel, Chase L. and Smolke, Christina D. (2009) Design principles for riboswitch function. PLoS Computational Biology, 5 (4). Art. No. e1000363. ISSN 1553-734X. PMCID PMC2666153. https://resolver.caltech.edu/CaltechAUTHORS:20090722-113142433

Giurumescu, Claudiu A. and Sternberg, Paul W. and Asthagiri, Anand R. (2009) Predicting Phenotypic Diversity and the Underlying Quantitative Molecular Transitions. PLoS Computational Biology, 5 (4). Art. No. e1000354. ISSN 1553-734X. PMCID PMC2661366. https://resolver.caltech.edu/CaltechAUTHORS:20090820-142952457

Rentmeister, Andrea and Arnold, Frances H. and Fasan, Rudi (2009) Chemo-enzymatic fluorination of unactivated organic compounds. Nature Chemical Biology, 5 (1). pp. 26-28. ISSN 1552-4450. PMCID PMC2713661. https://resolver.caltech.edu/CaltechAUTHORS:RENncb09

2008

Beatty, Kimberly E. and Tirrell, David A. (2008) Two-color labeling of temporally defined protein populations in mammalian cells. Bioorganic and Medicinal Chemistry Letters, 18 (22). pp. 5995-5999. ISSN 0960-894X. PMCID PMC3182832. https://resolver.caltech.edu/CaltechAUTHORS:BEAbmcl08