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Items where Research Group Name is "Rosen Bioengineering Center"

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Number of items: 80.


Savela, Emily S. and Winnett, Alexander and Romano, Anna E. et al. (2021) SARS-CoV-2 is detectable using sensitive RNA saliva testing days before viral load reaches detection range of low-sensitivity nasal swab tests. . doi:10.1101/2021.04.02.21254771. (Unpublished)

Buss, Marjorie T. and Ramesh, Pradeep and English, Max Atticus et al. (2021) Spatial Control of Probiotic Bacteria in the Gastrointestinal Tract Assisted by Magnetic Particles. Advanced Materials . ISSN 0935-9648. (In Press)

Greenwald, Noah F. and Miller, Geneva and Moen, Erick et al. (2021) Whole-cell segmentation of tissue images with human-level performance using large-scale data annotation and deep learning. . (Unpublished)

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.

Zheng, Guoan and Shen, Cheng and Jiang, Shaowei et al. (2021) Concept, implementations and applications of Fourier ptychography. Nature Reviews Physics, 3 (3). pp. 207-223. ISSN 2522-5820.

Qu, Zijie and Jiang, Jialong and Lee, Heun Jin et al. (2021) Programming Boundary Deformation Patterns in Active Networks. . (Unpublished)

Morrison, Muir and Razo-Mejia, Manuel and Phillips, Rob (2021) Reconciling kinetic and thermodynamic models of bacterial transcription. PLOS Computational Biology, 17 (1). Art. No. e1008572. ISSN 1553-7358.

Bannon, Dylan and Moen, Erick and Schwartz, Morgan et al. (2021) DeepCell Kiosk: scaling deep learning–enabled cellular image analysis with Kubernetes. Nature Methods, 18 (1). pp. 43-45. ISSN 1548-7091.

Xu, Jian and Jahromi, Ali K. and Yang, Changhuei (2021) Diffusing wave spectroscopy: A unified treatment on temporal sampling and speckle ensemble methods. APL Photonics, 6 (1). Art. No. 016105. ISSN 2378-0967.


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 (Unpublished)

Tsypin, Lev M. and Newman, Dianne K. (2020) Bidirectional redox cycling of phenazine-1-carboxylic acid by Citrobacter portucalensis MBL drives increased nitrate reduction. . (Unpublished)

Wu, Zhiguang and Chen, Ye and Mukasa, Daniel et al. (2020) Medical micro/nanorobots in complex media. Chemical Society Reviews, 49 (22). pp. 8088-8112. ISSN 0306-0012.

Merk, Liana N. and Shur, Andrey S. and Pandey, Ayush et al. (2020) Engineering Logical Inflammation Sensing Circuit for Modulating Gut Conditions. . (Unpublished)

Trivedi, Vikas and Madaan, Sara and Holland, Daniel B. et al. (2020) Imaging the Beating Heart with Macroscopic Phase Stamping. . (Unpublished)

Belliveau, Nathan M. and Chure, Griffin and Hueschen, Christina L. et al. (2020) Fundamental limits on the rate of bacterial growth. . (Unpublished)

Rabut, Claire and Yoo, Sangjin and Hurt, Robert C. et al. (2020) Ultrasound Technologies for Imaging and Modulating Neural Activity. Neuron, 108 (1). pp. 93-110. ISSN 0896-6273.

Qu, Zijie and Schildknecht, Dominik and Shadkhoo, Shahriar et al. (2020) Persistent fluid flows defined by active matter boundaries. . (Unpublished)

Saunders, Scott H. and Tse, Edmund C. M. and Yates, Matthew D. et al. (2020) Extracellular DNA Promotes Efficient Extracellular Electron Transfer by Pyocyanin in Pseudomonas aeruginosa Biofilms. Cell, 182 (4). pp. 919-932. ISSN 0092-8674. PMCID PMC7457544.

Razo-Mejia, Manuel and Marzen, Sarah and Chure, Griffin et al. (2020) First-principles prediction of the information processing capacity of a simple genetic circuit. Physical Review E, 102 (2). Art. No. 022404. ISSN 2470-0045.

Ruan, Haowen and Liu, Yan and Xu, Jian et al. (2020) Fluorescence imaging through dynamic scattering media with speckle-encoded ultrasound-modulated light correlation. Nature Photonics, 14 (8). pp. 511-516. ISSN 1749-4885.

Quintero-Cadena, Porfirio and Lenstra, Tineke L. and Sternberg, Paul W. (2020) RNA Pol II Length and Disorder Enable Cooperative Scaling of Transcriptional Bursting. Molecular Cell, 79 (2). pp. 207-220. ISSN 1097-2765.

Morrison, Muir and Razo-Mejia, Manuel and Phillips, Rob (2020) Reconciling Kinetic and Equilibrium Models of Bacterial Transcription. . (Unpublished)

Barlow, Jacob T. and Bogatyrev, Said R. and Ismagilov, Rustem F. (2020) A Quantitative Sequencing Framework for Absolute Abundance Measurements of Mucosal and Lumenal Microbial Communities. Nature Communications, 11 . Art. No. 2590. ISSN 2041-1723. PMCID PMC7244552.

Xu, Jian and Cao, Ruizhi and Cua, Michelle et al. (2020) Single-shot surface 3D imaging by optical coherence factor. Optics Letters, 45 (7). pp. 1734-1737. ISSN 0146-9592.

Min, Jihong and Yang, Yiran and Wu, Zhiguang et al. (2020) Robotics in the Gut. Advanced Therapeutics, 3 (4). Art. No. 1900125. ISSN 2366-3987.

Davis, Hunter C. and Kang, Sunghwi and Lee, Jae-Hyun et al. (2020) Nanoscale Heat Transfer from Magnetic Nanoparticles and Ferritin in an Alternating Magnetic Field. Biophysical Journal, 118 (6). pp. 1502-1510. ISSN 0006-3495. PMCID PMC7091488 .


Einav, Tal and Yazdi, Shahrzad and Coey, Aaron et al. (2019) Harnessing Avidity: Quantifying the Entropic and Energetic Effects of Linker Length and Rigidity for Multivalent Binding of Antibodies to HIV-1. Cell Systems, 9 (5). pp. 466-474. ISSN 2405-4712. PMCID PMC6892280.

Song, Yu and Min, Jihong and Gao, Wei (2019) Wearable and Implantable Electronics: Moving toward Precision Therapy. ACS Nano, 13 (11). pp. 12280-12286. ISSN 1936-0851.

Moen, Erick and Borba, Enrico and Miller, Geneva et al. (2019) Accurate cell tracking and lineage construction in live-cell imaging experiments with deep learning. . (Unpublished)

Zhukov, Dmitriy V. and Khorosheva, Eugenia M. and Khazaei, Tahmineh et al. (2019) Microfluidic SlipChip device for multistep multiplexed biochemistry on a nanoliter scale. Lab on a Chip, 19 (19). pp. 3200-3211. ISSN 1473-0197.

Ramirez-Zamora, Adolfo and Gradinaru, Viviana (2019) Proceedings of the Sixth Deep Brain Stimulation Think Tank Modulation of Brain Networks and Application of Advanced Neuroimaging, Neurophysiology, and Optogenetics. Frontiers in Neuroscience, 13 . Art. No. 936. ISSN 1662-453X. PMCID PMC6751331.

Chure, Griffin and Razo-Mejia, Manuel and Belliveau, Nathan M. et al. (2019) Predictive shifts in free energy couple mutations to their phenotypic consequences. Proceedings of the National Academy of Sciences of the United States of America, 116 (37). pp. 18275-18284. ISSN 0027-8424. PMCID PMC6744869.

Yang, Kevin K. and Wu, Zachary and Arnold, Frances H. (2019) Machine-learning-guided directed evolution for protein engineering. Nature Methods, 16 (8). pp. 687-694. ISSN 1548-7091.

Hanewich-Hollatz, Mikhail H. and Chen, Zhewei and Hochrein, Lisa M. et al. (2019) Conditional Guide RNAs: Programmable Conditional Regulation of CRISPR/Cas Function in Bacterial and Mammalian Cells via Dynamic RNA Nanotechnology. ACS Central Science, 5 (7). pp. 1241-1249. ISSN 2374-7943. PMCID PMC6661866.

Wu, Zhiguang and Li, Lei and Yang, Yiran et al. (2019) A microrobotic system guided by photoacoustic computed tomography for targeted navigation in intestines in vivo. Science Robotics, 4 (32). Art. No. eaax0613. ISSN 2470-9476. PMCID PMC7337196.

Einav, Tal and Phillips, Rob (2019) How the avidity of polymerase binding to the –35/–10 promoter sites affects gene expression. Proceedings of the National Academy of Sciences of the United States of America, 116 (27). pp. 13340-13345. ISSN 0027-8424. PMCID PMC6613100.

Zhang, Juner and Huang, Xiongyi and Zhang, Ruijie K. et al. (2019) Enantiodivergent α-Amino C–H Fluoroalkylation Catalyzed by Engineered Cytochrome P450s. Journal of the American Chemical Society, 141 (25). pp. 9798-9802. ISSN 0002-7863. PMCID PMC6666315.

Chure, Griffin and Razo-Mejia, Manuel and Belliveau, Nathan M. et al. (2019) The Energetics of Molecular Adaptation in Transcriptional Regulation. . (Unpublished)

Rajendran, Pradeep S. and Challis, Rosemary C. and Fowlkes, Charless C. et al. (2019) Identification of peripheral neural circuits that regulate heart rate using optogenetic and viral vector strategies. Nature Communications, 10 . Art. No. 1944. ISSN 2041-1723. PMCID PMC6486614.

Galstyan, Vahe and Funk, Luke and Einav, Tal et al. (2019) Combinatorial Control through Allostery. Journal of Physical Chemistry B, 123 (13). pp. 2792-2800. ISSN 1520-6106. PMCID PMC6467274.

Zhang, Xuan and Vyatskikh, Andrey and Gao, Huajian et al. (2019) Lightweight, flaw-tolerant, and ultrastrong nanoarchitected carbon. Proceedings of the National Academy of Sciences of the United States of America, 116 (14). pp. 6665-6672. ISSN 0027-8424. PMCID PMC6452738.

Yang, Kevin K. and Chen, Yuxin and Lee, Alycia et al. (2019) Batched Stochastic Bayesian Optimization via Combinatorial Constraints Design. Proceedings of Machine Learning Research, 89 . pp. 3410-3419. ISSN 1938-7228.

Zhang, Ruijie K. and Huang, Xiongyi and Arnold, Frances H. (2019) Selective C-H bond functionalization with engineered heme proteins: new tools to generate complexity. Current Opinion in Chemical Biology, 49 . pp. 67-75. ISSN 1367-5931. PMCID PMC6461521.

Vyatskikh, Andrey and Ng, Ryan C. and Edwards, Bryce et al. (2019) Additive manufacturing of titanium dioxide for dielectric photonic crystals. In: Advanced Fabrication Technologies for Micro/Nano Optics and Photonics XII. Proceedings of SPIE. No.10930. Society of Photo-optical Instrumentation Engineers (SPIE) , Bellingham, WA, Art. No. 109300H.

Cho, Inha and Prier, Christopher K. and Jia, Zhi-Jun et al. (2019) Enantioselective Aminohydroxylation of Styrenyl Olefins Catalyzed by an Engineered Hemoprotein. Angewandte Chemie International Edition, 58 (10). pp. 3138-3142. ISSN 1433-7851.

Challis, Rosemary C. and Ravindra Kumar, Sripriya and Chan, Ken Y. et al. (2019) Systemic AAV vectors for widespread and targeted gene delivery in rodents. Nature Protocols, 14 (2). pp. 379-414. ISSN 1754-2189.

Abdel-Haq, Reem and Schlachetzki, Johannes C. M. and Glass, Christopher K. et al. (2019) Microbiome–microglia connections via the gut–brain axis. Journal of Experimental Medicine, 216 (1). pp. 41-59. ISSN 0022-1007. PMCID PMC6314531.

Zhang, Ruijie K. and Chen, Kai and Huang, Xiongyi et al. (2019) Enzymatic assembly of carbon–carbon bonds via iron-catalysed sp^3 C–H functionalization. Nature, 565 (7737). pp. 67-72. ISSN 0028-0836. PMCID PMC6440214.

Shapero, Aubrey and Agarwal, Abhinav and Martinez, Juan Carlos et al. (2019) Wireless Implantable Intraocular Pressure Sensor with Parylene-Oil-Encapsulation and Forward-Angled RF Coil. In: 2019 IEEE 32nd International Conference on Micro Electro Mechanical Systems (MEMS). IEEE , Piscataway, NJ, pp. 21-24. ISBN 9781728116105.


Hochrein, Lisa M. and Ge, Tianjia J. and Schwarzkopf, Maayan et al. (2018) Signal Transduction in Human Cell Lysate via Dynamic RNA Nanotechnology. ACS Synthetic Biology, 7 (12). pp. 2796-2802. ISSN 2161-5063.

Einav, Tal and Gnanapragasam, Priyanthi N. P. and Yazdi, Shahrzad et al. (2018) Modeling Entropic and Energetic Effects of Linker Length and Rigidity within Synthetic HIV-1 Antibodies designed to Bind Bivalently to Env Spikes. . (Unpublished)

Rapp, Peter B. and Omar, Ahmad K. and Silverman, Bradley R. et al. (2018) Mechanisms of diffusion in associative polymer networks: evidence for chain hopping. Journal of the American Chemical Society, 140 (43). pp. 14185-14194. ISSN 0002-7863.

Einav, Tal and Duque, Julia and Phillips, Rob (2018) Theoretical analysis of inducer and operator binding for cyclic-AMP receptor protein mutants. PLoS ONE, 13 (9). Art. No. e0204275. ISSN 1932-6203. PMCID PMC6157895.

Einav, Tal and Yazdi, Shahrzad and Coey, Aaron et al. (2018) Harnessing Avidity: Quantifying Entropic and Energetic Effects of Linker Length and Rigidity Required for Multivalent Binding of Antibodies to HIV-1 Spikes. . (Unpublished)

Galimidi, Rachel P. and Einav, Tal and Gnanapragasam, Priyanthi N. P. et al. (2018) Quantifying the Entropic and Energetic Effects of Linker Length and Rigidity within Synthetic HIV-1 Antibodies designed to Bind Bivalently to Env Spikes. . (Unpublished)

Yang, Kevin K. and Wu, Zachary and Bedbrook, Claire N. et al. (2018) Learned Protein Embeddings for Machine Learning. Bioinformatics, 34 (15). pp. 2642-2648. ISSN 1367-4803. PMCID PMC6061698; PMC6247922.

Vyatskikh, Andrey and Kudo, Akira and Delalande, Stéphane et al. (2018) Additive Manufacturing of Polymer-Derived Titania for One-Step Solar Water Purification. Materials Today Communications, 15 . pp. 288-293. ISSN 2352-4928.

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.

Belliveau, Nathan M. and Barnes, Stephanie L. and Ireland, William T. et al. (2018) Systematic approach for dissecting the molecular mechanisms of transcriptional regulation in bacteria. Proceedings of the National Academy of Sciences of the United States of America, 115 (21). E4796-E4805. ISSN 0027-8424. PMCID PMC6003448.

Huang, Audrey and Sheldan, Benjamin and Sivak, David A. et al. (2018) Physically optimizing inference. . (Submitted)

Brandenberg, Oliver F. and Prier, Christopher K. and Chen, Kai et al. (2018) Stereoselective Enzymatic Synthesis of Heteroatom-Substituted Cyclopropanes. ACS Catalysis, 8 (4). pp. 2629-2634. ISSN 2155-5435.

Knight, Anders M. and Kan, S. B. Jennifer and Lewis, Russell D. et al. (2018) Diverse engineered heme proteins enable stereodivergent cyclopropanation of unactivated alkenes. ACS Central Science, 4 (3). pp. 372-377. ISSN 2374-7943. PMCID PMC5879470.

Vyatskikh, Andrey and Delalande, Stéphane and Kudo, Akira et al. (2018) Additive manufacturing of 3D nano-architected metals. Nature Communications, 9 . Art. No. 593. ISSN 2041-1723. PMCID PMC5807385.

Jang, Mooseok and Horie, Yu and Shibukawa, Atsushi et al. (2018) Wavefront shaping with disorder-engineered metasurfaces. Nature Photonics, 12 (2). pp. 84-90. ISSN 1749-4885. PMCID PMC5842956.

Davis, Hunter C. and Ramesh, Pradeep and Bhatnagar, Aadyot et al. (2018) Mapping the microscale origins of magnetic resonance image contrast with subcellular diamond magnetometry. Nature Communications, 9 . Art. No. 131. ISSN 2041-1723. PMCID PMC5760582.


Ruan, Haowen and Brake, Joshua and Robinson, J. Elliott et al. (2017) Deep tissue optical focusing and optogenetic modulation with time-reversed ultrasonically encoded light. Science Advances, 3 (12). Art. No. eaao5520. ISSN 2375-2548. PMCID PMC5722648.

Ruan, Haowen and Haber, Tom and Liu, Yan et al. (2017) Focusing light inside scattering media with magnetic-particle-guided wavefront shaping. Optica, 4 (11). pp. 1337-1343. ISSN 2334-2536. PMCID PMC5881932.

Qureshi, Muhammad Mohsin and Brake, Joshua and Jeon, Hee-Jae et al. (2017) In vivo study of optical speckle decorrelation time across depths in the mouse brain. Biomedical Optics Express, 8 (11). pp. 4855-4864. ISSN 2156-7085. PMCID PMC5695936; PMC5695950.

Bedbrook, Claire N. and Yang, Kevin K. and Rice, Austin J. et al. (2017) Machine learning to design integral membrane channelrhodopsins for efficient eukaryotic expression and plasma membrane localization. PLOS Computational Biology, 13 (10). Art. No. e1005786. ISSN 1553-7358. PMCID PMC5695628.

Obana, Maiko and Silverman, Bradley R. and Tirrell, David A. (2017) Protein-Mediated Colloidal Assembly. Journal of the American Chemical Society, 139 (40). pp. 14251-14256. ISSN 0002-7863. PMCID PMC5672941.

Hammer, Stephan C. and Knight, Anders M. and Arnold, Frances H. (2017) Design and Evolution of Enzymes for Non-natural Chemistry. Current Opinion in Green and Sustainable Chemistry, 7 . pp. 23-30. ISSN 2452-2236.

Lakshmanan, Anupama and Lu, George J. and Farhadi, Arash et al. (2017) Preparation of biogenic gas vesicle nanostructures for use as contrast agents for ultrasound and MRI. Nature Protocols, 12 (10). pp. 2050-2080. ISSN 1754-2189. PMCID PMC6185898.

Glasser, Nathaniel R. and Saunders, Scott H. and Newman, Dianne K. (2017) The Colorful World of Extracellular Electron Shuttles. Annual Review of Microbiology, 71 . pp. 731-751. ISSN 0066-4227. PMCID PMC5679407.

Prier, Christopher K. and Zhang, Ruijie K. and Buller, Andrew R. et al. (2017) Enantioselective, intermolecular benzylic C–H amination catalysed by an engineered iron-haem enzyme. Nature Chemistry, 9 (7). pp. 629-634. ISSN 1755-4330. PMCID PMC5555633.

Bedbrook, Claire N. and Rice, Austin J. and Yang, Kevin K. et al. (2017) Structure-guided SCHEMA recombination generates diverse chimeric channelrhodopsins. Proceedings of the National Academy of Sciences of the United States of America, 114 (13). E2624-E2633. ISSN 0027-8424. PMCID PMC5380088.

Herwig, Lukas and Rice, Austin J. and Bedbrook, Claire N. et al. (2017) Directed Evolution of a Bright Near-Infrared Fluorescent Rhodopsin Using a Synthetic Chromophore. Cell Chemical Biology, 24 (3). pp. 415-425. ISSN 2451-9456. PMCID PMC5357175.

Phillips, Rob (2017) Membranes by the Numbers. . (Submitted)


Zhou, Edward Haojiang and Shibukawa, Atsushi and Brake, Joshua et al. (2016) Glare suppression by coherence gated negation. Optica, 3 (10). pp. 1107-1113. ISSN 2334-2536. PMCID PMC5509221.

Lakshmanan, Anupama and Farhadi, Arash and Nety, Suchita P. et al. (2016) Molecular Engineering of Acoustic Protein Nanostructures. ACS Nano, 10 (8). pp. 7314-7322. ISSN 1936-0851. PMCID PMC6058967.

Brake, Joshua and Jang, Mooseok and Yang, Changhuei (2016) Analyzing the relationship between decorrelation time and tissue thickness in acute rat brain slices using multispeckle diffusing wave spectroscopy. Journal of the Optical Society of America A, 33 (2). pp. 270-275. ISSN 1084-7529. PMCID PMC4783160.

This list was generated on Wed Apr 14 05:08:55 2021 PDT.