Publications

Published

Rogers A, Niyonshuti II, Ou J, Shrestha D, Okyere D, Chen J, Wang Y. The Shape Modulation of Laser-Induced Nanowelded Microstructures Using Two Colors. Colloids and Interfaces, 2023; 7:67. https://doi.org/10.3390/colloids7040067.
Rogers A, He Z, Wang Y. Exploring the potential of tesla valve for filtering and sorting microscale active swimmers: A computational study. Applications in Engineering Science, 2023;16:100159. https://doi.org/10.1016/j.apples.2023.100159.
Russell B, Rogers A, Yoder R, Kurilich M, Krishnamurthi VR, Chen J, Wang Y. Silver Ions Inhibit Bacterial Movement and Stall Flagellar Motor. International Journal of Molecular Sciences, 2023;24:11704. https://doi.org/10.3390/ijms241411704.
Nguyen AT, Baucom DR, Wang Y, Heyes CD. Compact, Fast Blinking Cd-Free Quantum Dots for Super-Resolution Fluorescence Imaging. Chemical & Biomedical Imaging, 2023;1:251–9. https://doi.org/10.1021/cbmi.3c00018.
Shrestha D, Ou J, Rogers A, Jereb A, Okyere D, Chen J, Wang Y. Bacterial mobility and motility in porous media mimicked by microspheres. Colloids and Surfaces B: Biointerfaces, 2023, 222:113128. doi: 10.1016/j.colsurfb.2023.113128
Niyonshuti II, Rogers A, Okyere D, Wang Y, Chen J. Engineering silver nanoparticle surfaces for antimicrobial applications. Reference Module in Materials Science and Materials Engineering, 2022. doi: 10.1016/B978-0-12-822425-0.00099-3
Sadoon AA, Oliver WF, Wang Y. Revisiting the Temperature Dependence of Protein Diffusion inside Bacteria: Validity of the Stokes-Einstein Equation. Physical Review Letters, 2022, 129(1):018101. doi: 10.1103/PhysRevLett.129.018101
Rogers A., Bullard KB, Dod AC, Wang Y. Bacterial Growth Curve Measurements with a Multimode Microplate Reader. Bio-Protocol 2022; 12, no. 9: e4410–e4410. doi: 10.21769/BioProtoc.4410
Krishnamurthi VR, Harris N, Rogers A, Zou M, Wang Y. Interactions of E. Coli with Cylindrical Micro-Pillars of Different Geometric Modifications. Colloids and Surfaces B: Biointerfaces, 2021/10; 112190. doi: 10.1016/j.colsurfb.2021.112190.
Rogers A, Niyonshuti I, Cai A, Wang F, Benamara M, Chen J, Wang Y. Real-Time Imaging of Laser-Induced Nanowelding of Silver Nanoparticles in Solution. J. Phys. Chem. C. 2021/05; 125(19):10422-10430. doi: 10.1021/acs.jpcc.1c00184.
Dulal N, Rogers AM, Proko R, Bieger BD, Liyanage R, Krishnamurthi VR, Wang Y, Egan MJ. Turgor-dependent and coronin-mediated F-actin dynamics drive septin disc-to-ring remodeling in the blast fungus. J Cell Sci. 2021 Jan 7;. doi: 10.1242/jcs.251298. [Epub ahead of print] PubMed PMID: 33414165.
Tseng CY, Wang Y, Zocchi G. Enzyme-DNA chimeras: Construction, allostery, applications. Methods Enzymol. 2021;647:257-281. doi: 10.1016/bs.mie.2020.09.010. Epub 2020 Nov 2. PubMed PMID: 33482992.
Krishnamurthi VR, Niyonshuti II, Chen J, Wang Y. A new analysis method for evaluating bacterial growth with microplate readers. PLoS One. 2021;16(1):e0245205. doi: 10.1371/journal.pone.0245205. eCollection 2021. PubMed PMID: 33434196.
Saran R, Wang Y, Li I. Mechanical flexibility of DNA: A quintessential tool for DNA nanotechnology. Sensors. 2020/12; 20(24):7019. doi: 10.3390/s20247019.
Niyonshuti II, Krishnamurthi VR, Okyere D, Song L, Benamara M, Tong X, Wang Y, Chen J. Polydopamine Surface Coating Synergizes the Antimicrobial Activity of Silver Nanoparticles. ACS Appl Mater Interfaces. 2020 Sep 9;12(36):40067-40077. doi: 10.1021/acsami.0c10517. Epub 2020 Aug 28. PubMed PMID: 32794690.
Krishnamurthi VR, Rogers A, Peifer J, Niyonshuti II, Chen J, Wang Y. Microampere Electric Current Causes Bacterial Membrane Damage and Two-Way Leakage in a Short Period of Time. Appl Environ Microbiol. 2020 Aug 3;86(16). doi: 10.1128/AEM.01015-20. Print 2020 Aug 3. PubMed PMID: 32561580; PubMed Central PMCID: PMC7414946.
Freeland J, Zhang L, Wang ST, Ruiz M, Wang Y. Bent DNA bows as sensing amplifiers for detecting DNA-interacting salts and molecules. Sensors. 2020 May; 20(11):3112.
Freeland J, Krishnamurthi V, Wang Y. Learning the lens equation using water and smartphones/tablets. The Physics Teacher. 2020 May; 58(5):360-361. doi: 10.1119/1.5145539.
Dulal N, Rogers A, Wang Y, Egan M. Dynamic assembly of a higher-order septin structure during appressorium morphogenesis by the rice blast fungus. Fungal Genet Biol. 2020 Apr 16;:103385. doi: 10.1016/j.fgb.2020.103385. [Epub ahead of print] PubMed PMID: 32305452.
Wang Y, Fei J. Continuous active development of super-resolution fluorescence microscopy. Phys Biol. 2020 Apr 7;17(3):030401. doi: 10.1088/1478-3975/ab7731. PubMed PMID: 32066124.
Sadoon AA, Khadka P, Freeland J, Gundampati RK, Manso R, Ruiz M, Krishnamurthi VR, Thallapuranam SK, Chen J, Wang Y. Faster diffusive dynamics of histone-like nucleoid structuring proteins in live bacteria caused by silver ions. Appl Environ Microbiol. 2020 Jan 17;. doi: 10.1128/AEM.02479-19. [Epub ahead of print] PubMed PMID: 31953329.
Krishnamurthi VR, Chen J, Wang Y. Silver ions cause oscillation of bacterial length of Escherichia coli. Sci Rep. 2019 Aug 13;9(1):11745. doi: 10.1038/s41598-019-48113-4. PubMed PMID: 31409877; PubMed Central PMCID: PMC6692348.
Alqahtany M, Khadka P, Niyonshuti I, Krishnamurthi VR, Sadoon AA, Challapalli SD, Chen J, Wang Y. Nanoscale reorganizations of histone-like nucleoid structuring proteins in Escherichia coli are caused by silver nanoparticles. Nanotechnology. 2019 Sep 20;30(38):385101. doi: 10.1088/1361-6528/ab2a9f. Epub 2019 Jun 18. PubMed PMID: 31212266.
Freeland J, Khadka P, Wang Y. Mechanical-energy-based amplifiers for probing interactions of DNA with metal ions. Physical Review E. 2018 December; 98(6):062403. doi: 10.1103/PhysRevE.98.062403.
Sadoon AA, Wang Y. Anomalous, non-Gaussian, viscoelastic, and age-dependent dynamics of histonelike nucleoid-structuring proteins in live Escherichia coli. Physical Review E. 2018 October; 98(4):042411. doi: 10.1103/PhysRevE.98.042411.
Haque MA, Imamura R, Brown GA, Krishnamurthi VR, Niyonshuti II, Marcelle T, Mathurin LE, Chen J, Wang Y. An experiment-based model quantifying antimicrobial activity of silver nanoparticles on Escherichia coli. RSC Advances. 2017 December; 8(89):56173-56182. doi: 10.1039/C7RA10495B.
Jiang S, Park S, Challapalli SD, Fei J, Wang Y. Robust nonparametric quantification of clustering density of molecules in single-molecule localization microscopy. PLoS One. 2017;12(6):e0179975. doi: 10.1371/journal.pone.0179975. eCollection 2017. PubMed PMID: 28636661; PubMed Central PMCID: PMC5479598.
Nino D, Rafiei N, Wang Y, Zilman A, Milstein JN. Molecular Counting with Localization Microscopy: A Bayesian Estimate Based on Fluorophore Statistics. Biophys J. 2017 May 9;112(9):1777-1785. doi: 10.1016/j.bpj.2017.03.020. PubMed PMID: 28494949; PubMed Central PMCID: PMC5425379.
Wang Y. Spatial distribution of high copy number plasmids in bacteria. Plasmid. 2017 May;91:2-8. doi: 10.1016/j.plasmid.2017.02.005. Epub 2017 Mar 2. Review. PubMed PMID: 28263761.
Wang, Y., Penkul, P., and Milstein, J. N.* (2016). Quantitative localization microscopy in combination with DNA smFISH reveals new features of the organization of high-copy number plasmids in bacteria, Biophysical Journal, 111:467–79. [pdf]
Wang, Y., Cai, E., Rosenkranz, T., Ge, P., Teng, K. W., Lim, S. J., Smith, A. M., Chung, H. J., Sach, F., Green, W. N., Gottlieb, P., and Selvin, P. R. (2014). Small quantum dots conjugated to nanobodies as immunofluorescence probes for nanometric microscopy, Bioconjugate Chemistry, 25(12): 2205–2211. [pdf]
Cai, E., Ge, P., Lee, S. H., Jeyifous, O., Wang, Y., Liu, Y., Wilson, K. M., Lim, S. J., Baird, M. A., Stone, J. E., Lee, K. Y., Davidson, M. W., Chung, H. J., Schulten, K., Smith, A. M., Green, W. N., and Selvin, P. R. (2014). Stable small quantum dots for synaptic receptor tracking on live neurons, Angewandte Chemie International Edition, 53(46): 12484–12488. [pdf]
Wang, Y.#, Cai, E.#, Sheung, J., Lee, S. H., and Selvin, P. R. (2014). Fluorescence Imaging with One-Nanometer Accuracy (FIONA), Journal of Visualized Experiments, 91:e51774. [pdf] (#: Equal Contribution)
Wang, Y., Liu, Y., DeBerg, H. A., Nomura, T., Hoffman, M. T., Rohde, P. R., Schulten, K., Martinac, B., and Selvin, P. R. (2014). Single molecule FRET reveals pore size and opening mechanism of a mechano-sensitive ion channel. eLife, 3, e01834. (In the News) [pdf]
Wang, Y., Fruhwirth, G., Cai, E., Ng, T., and Selvin, P. R. (2013). 3D super-resolution imaging with blinking quantum dots. Nano Letters, 13(11), 5233–5241. [pdf]
Wang, Y., and Zocchi, G. (2011). Viscoelastic Transition and Yield Strain of the Folded Protein. PLoS ONE, 6(12), e28097. (In the News) [pdf]
Qu, H., Wang, Y., Tseng, C. Y., and Zocchi, G. (2011). Critical torque for kink formation in double-stranded DNA. Phys. Rev. X, 1, 021008. [pdf]
Wang, Y., and Zocchi, G. (2011). The folded protein as a viscoelastic solid, Europhysics Letters, 96, 18003. [pdf]
Wang, Y., and Zocchi, G. (2010). Elasticity of globular proteins measured from the AC susceptibility, Phys. Rev. Lett., 105(23), 238104. (Editor’s Suggestion; highlighted by the Physics Spotlighting Exceptional Research and Materials 360) [pdf]
Qu, H., Tseng, C. Y., Wang, Y., Levine, A. J., and Zocchi, G. (2010). The elastic energy of sharply bent nicked DNA, Europhysics Letters, 90, 18003. (In the News) [pdf]
Wang, Y., and Zocchi, G. (2010). Shape of fair weather clouds, Phys. Rev. Lett., 104(11), 118502. (Invited to APS Press Conference) [pdf]
Wang, Y., Wang, A., Qu, H., and Zocchi, G. (2009). Protein-DNA chimeras: synthesis of two-arm chimeras and non-mechanical effects of the DNA spring, J Phys Condens Matter, 21(33):335103. [pdf]
Lai, F., Wang, Y., Li, M., Wang, H., Song, Y., Jiang, Y. (2007). Determination of optical constants and inhomogeneity of optical films by two-step film envelope method, Thin Solid Films, 515(11), 4763-4767. [pdf]
Fan, H. Y., and Wang, Y. (2006). Study Hankel Transforms and Properties of Bessel Function via Entangled State Representation Transformation in Quantum Mechanics, Commun. Theor. Phys., 45, 819–824. [pdf]
Fan, H. Y., and Wang, Y. (2006). Generating Generalized Bessel Equations by Virtue of Bose Operator Algebra and Entangled State Representations, Commun. Theor. Phys., 45, 71–74. [pdf]