See also Google Scholar for links to articles and citations.
2022
- Gokhale, D., Chen, I., and Doyle, P.S. " Micelle-Laden Hydrogel Microparticles for the Removal of Hydrophobic Micropollutants from Water" Applied Polymer Materials, 4, 746-754, 2022. pdf reprint.
- Al Sulaiman, D., Juthani, N., and Doyle, P.S. " Quantitative and Multiplex Detection of Extracellular Vesicle-derived microRNA via Rolling Circle Amplification within Encoded Hydrogel Microparticles" Advanced Healthcare Materials, 2102332, 2022. pdf reprint.
- Bora, M., Hsu, M.N., Khan, S.A., and Doyle, P.S. " Hydrogel Microparticle-Templated Anti-Solvent Crystallization of Small-Molecule Drugs" Advanced Healthcare Materials, 2102252, 2022. pdf reprint.
- Ng, D.Z.L., Nelson, A.Z., Ward, G., Lai, D., Doyle, P.S., and Khan, S.A. " Control of Drug-Excipient Particle Attributes with Droplet Microfluidic-based Extractive Solidification Enables Improved Powder Rheology" Pharmaceutical Research, 2022. pdf reprint.
2021
- Yadav, I., Al Sulaiman, D., Soh, B.W., and Doyle, P.S. "Phase Transition of Catenated DNA Networks in Poly(ethylene glycol) Solutions" ACS Macro Letters, 10, 1429-1435, 2021. pdf reprint.
- Kim, J.J., Jorfi, M., Tanzi, R.E., Kim, D.Y., Doyle, P.S., and Daniel, I. "Patterning of interconnected human brain spheroids" Lab Chip, 2021. pdf reprint.
- Soh, B.W., and Doyle, P.S. "Equilibrium Conformation of Catenated DNA Networks in Slitlike Confinement" ACS Macro Letters, 10, 880-885, 2021. pdf reprint.
- Chen, L.-H., and Doyle, P.S. "Design and Use of a Thermogelling Methylcellulose Nanoemulsion to Formulate Nanocrystalline Oral Dosage Forms" Advanced Materials, 2008618, 2021. pdf reprint.
- Parthiban, P., Vijayan, S., Dai, L., Doyle, P.S., and Hashimoto, M. " Evaluation of 3D-printed molds for fabrication of non-planar microchannels" Biomicrofluidics, 15, 024111, 2021. pdf reprint.
- Sharma, R., Agrawal, I., Dai, L., Doyle, P.S., and Garaj, S. " DNA knot malleability in single-digit nanopores" Nano Letters, xxx, 2021. pdf reprint.
- Nelson, A.Z., Xie, J., Khan, S.A., and Doyle, P.S. " Continuous embedded droplet printing in yield-stress fluids for pharmaceutical drug particle synthesis" Advanced Materials Technologies, 6, 2001245, 2021. pdf reprint.
- Schieferstein, J.M., Reichert, P., Narasimhan, C.N., and Doyle, P.S. " Hydrogel Microsphere Encapsulation Enhances the Flow Properties of Monoclonal Antibody Crystal Formulations" Advanced Therapeutics, 2000216, 2021. pdf reprint.
- Al Sulaiman, D., Shapiro, S., Gomez-Marquez, J., and Doyle, P.S. " High-resolution Patterning of Hydrogel Sensing Motifs within Fibrous Substrates for Sensitive and Multiplexed Detection of Biomarkers" ACS Sensors, 6, 203-211, 2021. pdf reprint.
2020
- Kapellos, G.E., Nagarajan, M.B., Kalogerakis, N., and Doyle, P.S. " Evaluation of a new millifluidic device for the consistent determination of oil droplet biodegradation kinetics" Sustainable Environmental Solutions - Proceedings of the 16th International Conference on Environmental Science and Technology (CEST2019);pdf reprint.
- Soh, B.W., Khorshid, A., Al Sulaiman, D., and Doyle, P.S. " Ionic Effects on the Equilibrium Conformation of Catenated DNA Networks" Macromolecules, 53, 8502−8508, 2020. pdf reprint.
- Nie, P., Chattoraj, J., Piscitelli, A., Doyle, P.S., Ni, R., and Ciamarra, M.P. " Frictional active Brownian particles" Phys. Rev. E, 102, 032612, 2020. pdf reprint.
- Soh, B.W., Klotz, A.R. and Doyle, P.S. " Topological Simplification of Complex Knots Untied in Elongational Flows" Macromolecules, 53, 7389-7398, 2020. pdf reprint.
- Chen, L.-H., Cheng, L.-C. and Doyle, P.S. "Nanoemulsion-loaded capsules for controlled delivery of lipophilic active ingredients" Advanced Science, 2001677, 2020. pdf reprint
- Juthani, N. and Doyle, P.S. "A Platform for Multiplexed Colorimetric microRNA Detection using Shape-encoded Hydrogel Particles" Analyst, 145, 5134-5140, 2020, Advance Article. pdf reprint.
- Soh, B.W. and Doyle, P.S. "Deformation Response of Catenated DNA Networks in a Planar Elongational Field" ACS Macro Letters, 9, 944-949, 2020. pdf reprint.
- Nagarajan, M.B., Tentori, A.M., Zhang, W.C., Slack, F.J. and Doyle, P.S. "Spatially-Resolved and Multiplexed MicroRNA Quantification from Tissue Using Nanoliter Well Arrays" Microsystems & Nanoengineering, 6, 51, 2020. pdf reprint.
- Klotz, A.R., Soh, B.W. and Doyle, P.S. "An experimental investigation of attraction between knots in a stretched DNA molecule" Europhys. Lett., 129, 68001, 2020. pdf reprint.
- Lee, H., Lee, J., Lee, S.G. and Doyle, P.S. "Hydrogel-based colorimetric assay for multiplexed microRNA detection in a microfluidic device" Analytical Chemistry, 92, 5750-5755, 2020. pdf reprint.
- Prakash, S., Ashley, B.K., Doyle, P.S. and Hassan, U. "Design of a Multiplexed Analyte Biosensor using Digital Barcoded Particles and Impedance Spectroscopy" Scientific Reports, 10, 6109, 2020. pdf reprint.
- Cheng, L.-C., Vehusheia, S.L.K. and Doyle, P.S. "Tuning Material Properties of Nanoemulsion Gels by Sequentially Screening Electrostatic Repulsions and then Thermally-Inducing Droplet Bridging" Langmuir, 36, 3346-3355, 2020. pdf reprint.
- Nie, P., Chattoraj, J., Piscitelli, A., Doyle, P.S., Ni, R. and Ciamarra, M.P. "Stability phase diagram of active Brownian particles" Phys. Rev. Research, 2, 023010, 2020. pdf reprint.
- Nelson, A.Z., Kundukad, B., Wong, W.K., Khan, S.A. and Doyle, P.S. "Embedded droplet printing in yield-stress fluids" PNAS, 117, 5671-5679, 2020. pdf reprint. Featured in MIT news (http://news.mit.edu/2020/smart-develops-new-way-process-fluid-droplets-0316).
- Kundukad, B., Udayakumar, G., Grela, E., Kaur, D., Rice, S.A., Kjelleberg, S. and Doyle, P.S. "Weak acids as an alternative anti-microbial therapy" Biofilm, accepted.
- Cheng, L.-C., Hashemnejad, S.M., Zarket, B., Muthukrishnan, S. and Doyle, P.S. "Thermally and pH-Responsive Gelation of Nanoemulsions Stabilized by Weak Acid Surfactants" J. Colloid Interface Sci, 563, 229-240, 2020. pdf reprint.
- Klotz, A.R., Soh, B.W. and Doyle, P.S. "Equilibrium Structure and Deformation Response of 2D Kinetoplast Sheets" PNAS, 117, 121-127, 2020. pdf reprint. Commentary on article written by Alexander Y. Grosberg (pdf).
- Domenech, T. and Doyle, P.S. "High Loading Capacity Nanoencapsulation and Release of Hydrophobic Drug Nanocrystals from Microgel Particles" Chemistry of Materials, 32, 498-509, 2020. pdf reprint
2019
- Soh, B.W., Gengaro, I.R., Klotz, A.R. and Doyle, P.S. "Self-entanglement of a tumbled circular chain" Phys. Rev. Research, 1, 033194, 2019. pdf reprint
- Dai, L., Soh, B.W. and Doyle, P.S. "Effects of side chains on polymer knots" Macromolecules, 52, 6792-6800, 2019. pdf reprint
- Sharma, R.K., Agrawal, I., Dai, L., Doyle, P.S. and Garaj, S. "Complex DNA knots detected with a nanopore sensor" Nature Communications, 10:4473, 2019. pdf reprint.
- Soh, B.W., Klotz, A.R., Dai, L. and Doyle, P.S. "Conformational State Hopping of Knots in Tensioned Polymer Chains" ACS Macro Letters, 8, 905-911, 2019. pdf reprint
- Cheng, L.-C., Sherman, Z., Swan, J.W. and Doyle, P.S. "Colloidal Gelation Through Thermally-Triggered Surfactant Displacement" Langmuir, 35, 9464-9473, 2019. pdf reprint
- Soh, B.W., Klotz, A.R., Robertson-Anderson R.M. and Doyle, P.S. "Long-lived self-entanglements in ring polymers " Phys. Rev. Lett., 123, 048002, 2019. pdf reprint
- Hashemnejad, S.M., Badruddoza, A.Z., Zarket, B, Castaneda, C.R. and Doyle, P.S. "Thermoresponsive Nanoemulsion-Based Gel Synthesized Through a Low-Energy Process " Nature Communications, 10:2749, 2019. pdf reprint. Featured in MIT news (http://news.mit.edu/2019/nanoemulsion-gels-skin-drugs-0621).
- Parthiban, P., Doyle, P.S. and Hashimoto, M. "Self-assembly of Droplets in Three-dimensional Microchannels " Soft Matter, 15, 4244-4254, 2019. pdf reprint
- Godfrin, P.D., Lee, H., Lee, J.H. and Doyle, P.S. "Photopolymerized micelle-laden hydrogels can simultaneously form and encapsulate nanocrystals to improve drug substance solubility and expedite drug product design " Small, 15, 1803372, 2019. pdf reprint
- Kang, J.H., Miettinen, T.P., Olcum, S., Katsikis, G., Chen, L., Doyle, P.S. and Manalis, S.R. "Non-invasive monitoring of single-cell mechanics by acoustic scattering" Nature Methods, 16, 263-269, 2019. pdf reprint
2018
- Hizawa, T., Takano, A., Parthiban, P., Doyle, P.S., Iwase, E. and Hashimoto, M. "Rapid Prototyping of Fluoropolymer Microchannels by Xurography for Improved Solvent Resistance " Biomicrofluidics, 12, 064105, 2018. pdf reprint
- Guttula, D., Yao, M., Baker, K., Liang, Y., Goult, B.T., Doyle, P.S. and Yan, J. "Calcium-mediated Protein Folding and Stabilisation of Salmonella Biofilm-associated Protein A " Journal of Molecular Biology, 431, 433-443, 2018. pdf reprint
- Soh, B.W., Klotz, A.R. and Doyle, P.S. "Untying of complex knots on stretched polymers in elongational fields" Macromolecules, 51, 9562-9571, 2018. pdf reprint
- Park, J. and Doyle, P.S. "Multifunctional Hierarchically-Assembled Hydrogel Particles with Pollen Grains via Pickering Suspension Polymerization" Langmuir, 34, 14643-14651, 2018. pdf reprint
- Chew, S.C., Yam, J.K.H., Matysik, A., Seng, Z.J., Klebensberger, J., Givskov, M., Doyle, P.S., Rice, S.A., Yang, L. and Kjelleberg, S. "Matrix polysaccharides and SiaD diguanylate cyclase alter community structure and competitiveness of Pseudomonas aeruginosa during dual species biofilm development with Staphylococcus aureus" mBio, 9, e00585-18, 2018. pdf reprint
- Shapiro, S.J., Dendukuri, D. and Doyle, P.S. "Design of Hydrogel Particle Morphology for Rapid Bioassays" Analytical Chemistry, 90, 13572-13579, 2018. pdf reprint
- Yuan, R., Nagarajan, M., Lee, J., Voldman, J., Doyle, P.S. and Fink, Y. "Designable 3-D Microshapes Fabricated at the Intersection of Structured Flow and Optical Fields" Small, 1803585, 2018. pdf reprint
- Gupta, A., Lee, H. and Doyle, P.S. "Oil Recovery from Micropatterned Triangular Troughs during a Surfactant Flood" Langmuir, 34, 10644-10649, 2018. pdf reprint
- Ding, D., Kundukad, B., Somasundar, A., Vijayan, S., Khan, S.A. and Doyle, P.S. "Design of Mucoadhesive PLGA Microparticles for Ocular Drug Delivery" ACS Applied Bio Materials, 1, 561-571, 2018. pdf reprint
- Nagarajan, M.B., Tentori, A.M., Zhang, W.C., Slack, F.J. and Doyle, P.S. "Non-fouling, encoded hydrogel microparticles for multiplex microRNA profiling directly from formalin-fixed, paraffin-embedded tissue" Analytical Chemistry, 90, 10279-10285, 2018. pdf reprint
- Dai, L. and Doyle, P.S. "Universal knot spectra for confined polymers" Macromolecules, 51, 6327-6333, 2018. pdf reprint
- Tentori, A.M., Nagarajan, M.B., Kim, J.J., Zhang, W.C., Slack, F.J. and Doyle, P.S. "Quantitative and multiplex microRNA assays from unprocessed cells in isolated nanoliter well arrays" Lab Chip, 18, 2410-2424, 2018. pdf reprint
- Cheng, L.-C., Godfrin, P.G., Swan, J.W. and Doyle, P.S. "Thermal Processing of Thermogelling Nanoemulsions as a Route to Tune Material Properties" Soft Matter, 14, 5604 - 5614, 2018. pdf reprint
- Kim, J.J., Reátegui, E., Hopke, A., Jalali, F., Roushan, M., Doyle, P.S. and Irimia, D. "Large-scale Patterning of Living Colloids for Dynamic Studies of Neutrophil-Microbe Interactions" Lab Chip, 18, 1514-1520, 2018. pdf reprint
- Klotz, A.R., Soh, B.W. and Doyle, P.S. "Motion of knots in DNA stretched by elongational fields" Phys. Rev. Lett., 120, 188003, 2018. pdf reprint. Featured in MIT news (http://news.mit.edu/2018/untangling-dna-knots-0503) and Physics World (https://physicsworld.com/a/how-to-untangle-knotty-dna/).
- Chen, L., Kim, J.J. and Doyle, P.S. "Microfluidic platform for selective microparticle parking and paired particle isolation in droplet arrays" Biomicrofluidics, 12, 024102, 2018. pdf reprint
- Kapellos, G.E., Paraskeva, C.A., Kalogerakis, N. and Doyle, P.S. "Theoretical insight into the biodegradation of solitary oil microdroplets moving through a water column" Bioengineering, 5, 15, 2018. pdf reprint
- Soh, B.W., Narsimhan, V., Klotz, A.R. and Doyle, P.S. "Knots modify the coil-stretch transition in linear DNA polymers" Soft Matter, 14, 1689 - 1698, 2018. pdf reprint
- Badruddoza, A.Z, Gupta, A., Myerson, A.S., Trout, B.L., and Doyle, P.S. "Low Energy Nanoemulsions as Temples for the Formulation of Hydrophobic Drugs" Advanced Therapeutics, 1700020, 2018. pdf reprint
2017
- Narsimhan, V., Klotz, A.R., and Doyle, P.S. "Steady-state and transient behavior of knotted chains in extensional fields " ACS Macro Letters, 6, 1285-1289, 2017. pdf reprint
- Gupta, A., Lee, H., and Doyle, P.S. "Controlled liquid entrapment over patterned sidewalls in confined geometries " Phys. Rev. Fluids, 2, 094007, 2017. pdf reprint
- Cheng, L.-C., Hsiao, L.C., and Doyle, P.S. "Multiple Particle Tracking Study of Thermally-Gelling Nanoemulsions " Soft Matter, 13, 6606 - 6619, 2017. pdf reprint
- Dai, L., Jones, J.J., Klotz, A.R., Levy, S., and Doyle, P.S. "Nanoconfinement greatly speeds up the nucleation and the annealing in single-DNA collapse " Soft Matter, 13, 6363 - 6371, 2017. pdf reprint
- Kim, J.J., Chen, L., and Doyle, P.S. "Microparticle Parking and Isolation for Highly Sensitive MicroRNA Detection" Lab Chip, 17, 3120-3128, 2017. pdf reprint
- Brown, P., Sresht, V., Eral B.H., Fiore, A., de la Fuente-Nunez, C., O'Mahony, M., Mendes, G.P., Heller, W.T., Doyle, P.S., Blankschtein, D., and Hatton, T.A. "CO2-Reactive Ionic Liquid Surfactants for the Control of Colloidal Morphology" Langmuir, 33, 7633-7641, 2017. pdf reprint
- Gupta, A., Badruddoza, A.Z., and Doyle, P.S. "A General Route for Nanoemulsion Synthesis using Low Energy Methods at Constant Temperature" Langmuir, 33, 7118-7123, 2017. pdf reprint
- Kundukad, B., Schussman, M., Kaiyuan, Y., Seviour, T., Liang, Y., Rice, S.A., Kjelleberg, S., and Doyle, P.S. "Mechanistic action of weak acid drugs on biofilms." Scientific Rep., 7, 4783, 2017. pdf reprint
- Klotz, A.R., Narsimhan, V., Soh, B.W., and Doyle, P.S. "Dynamics of DNA Knots During Chain Relaxation." Macromolecules, 50, 4074-4082, 2017. pdf reprint
- Lee, H., Gupta, A., Hatton, T.A., and Doyle, P.S.. "Creating isolated liquid compartments using photopatterned obstacles in microfluidics," Phys. Rev. Appl., 7, 044013, 2017. pdf reprint
- Samad, T., Billings, N., Birjiniuk, A., Crouzier, T., Doyle, P.S., and Ribbeck, K. "Swimming bacteria promote dispersal of non-motile staphylococcal species," ISME Journal, 1-5, 2017. pdf reprint
- Chiu, D.T., deMello, A.J., Di Carlo, D., Doyle, P.S., Hansen, C., Maceiczyk, R.M. and Wootton, R.C.R. "Small but Perfectly Formed? Successes, Challenges, and Opportunities for Microfluidics in the Chemical and Biological Sciences," Chem, 2, 201-223, 2017. pdf reprint
- Dai, L. and Doyle, P.S. "Trapping a Knot into Tight Conformations by Intra-Chain Repulsions," Polymers, 9, 57, 2017. pdf reprint
- Chen, L., Wang, K.X., and Doyle, P.S. "Effect of internal architecture on microgel deformation in microfluidic constrictions," Soft Matter, 13, 1920-1928, 2017. pdf reprint
- Hsiao, L.C., Badruddoza, A.Z.M., Cheng, L.-C., and Doyle, P.S. "3D Printing of Self-Assembling Thermoresponsive Nanoemulsions into Hierarchical Mesostructured Hydrogels," Soft Matter, 13, 921-929, 2017. pdf reprint
2016
- Gupta, A., Narsimhan, V., Hatton, T.A. and Doyle, P.S.. "Kinetics of Change in Droplet Size during Nanoemulsion Formation," Langmuir, 32, 11551-11559, 2016. pdf reprint
- Dai, L. and Doyle, P.S.. "Effects of intra-chain interactions on the knot size of a polymer," Macromolecules, 49, 7581-7587, 2016. pdf reprint
- Kim, J.J., Bong, K.W., Reategui, E., Irimia, D., and Doyle, P.S.. "Porous microwells for geometry-selective, large-scale microparticle arrays," Nature Materials, 16, 139-146, 2016. pdf reprint
- Eral, H.B., Safai, E.R., Keshavarz, B., Kim, J.J., Lee, J., and Doyle, P.S.. "Governing principles of alginate microparticle synthesis with centrifugal forces," Langmuir, 32, 7198-7209, 2016. pdf reprint
- Kundukad, B., Seviour, T.W., Yang, L., Kjellenberg, S., and Doyle, P.S. "Mechanical properties of the superficial biofilm layer determine the architecture of biofilm," Soft Matter, 12, 5718-5726, 2016. pdf reprint
- Chew, S.C., Kundukad, B., Teh, W.K., Doyle, P.S., Yang, L., Rice, S.A., and Kjelleberg, S. "Mechanical signatures of microbial biofilms in micropillar-embedded growth chambers," Soft Matter, 12, 5224-5232, 2016. pdf reprint
- Narsimhan, V., Renner, C.B., and Doyle, P.S. "Translocation dynamics of knotted polymers under a constant or periodic external field," Soft Matter, 12, 5041-5049, 2016. pdf reprint
- Badruddoza, A.Z.M., Godfrin, P.D., Myerson, A.S., Trout, B.L., and Doyle, P.S. "Core-shell Composite Hydrogels for Controlled Nanocrystal Formation and Release of Hydrophobic Active Pharmaceutical Ingredients," Adv. Healthcare Mat., 5, 1960-1968, 2016. pdf reprint
- Lee, S.G., Lee, H., Gupta, A., Chang, S., and Doyle, P.S.. "Site-Selective In Situ Grown Calcium Carbonate Micromodels with Tunable Geometry, Porosity, and Wettability," Adv. Func. Mat., 26, 4896-4905, 2016. pdf reprint
- Gupta, A., Eral, H.B., Hatton, T.A., and Doyle, P.S. "Nanoemulsions: Formation, Properties and Applications," Soft Matter, 12, 2826, 2016. pdf reprint
- Lee, H., Shapiro, S., Chapin, S., and Doyle, P.S. "Encoded hydrogel microparticles for sensitive and multiplex microRNA detection directly from raw cell lysates," Anal. Chem., 88, 3075-3081, 2016. pdf reprint
- Chen, L., An, H.Z., Haghgooie, R., Shank, A.T., Martel, J.M., Toner, M., and Doyle, P.S. "Flexible Octopus-shaped Hydrogel Particles for Specific Cell Capture," Small, 12, 2001-2008, 2016. pdf reprint
- Narsimhan, V., Renner, C.B., and Doyle, P.S. "Jamming of Knots along a Tensioned Chain," ACS Macro Lett., 5, 123-127, 2016. pdf reprint
- Gupta, A., Eral, H.B., Hatton, T.A., and Doyle, P.S. "Controlling and predicting droplet size of nanoemulsions: scaling relations with experimental validation," Soft Matter, 12, 1452, 2016. pdf reprint.
- Dai, L., Renner, C.B., and Doyle, P.S. "The polymer physics of single DNA confined in nanochannels," Adv. Colloid Interface Sci., 232, 80-100, 2016. pdf reprint
2015
- Dai, L., Renner, C.B., Yan, J., and Doyle, P.S. "Coil-globule transition of a single semiflexible chain in slitlike confinement," Scientific Rep., 5, 18438, 2015. pdf reprint
- Bong, K.W., Kim, J.J., Cho, H., Lim, E., Doyle, P.S., Irimia, D. "Synthesis of Cell-Adhesive Anisotropic Multifunctional Particles by Stop Flow Lithography and Streptavidin-Biotin Interactions," Langmuir, 31, 13165-13171, 2015. pdf reprint
- Cong, P., Dai, L., Chen, H., van der Maarel, J., Doyle, P.S., and Yan, J. "Revisiting the Anomalous Bending Elasticity of Sharply Bent DNA," Biophys. J., 109, 2338-2351, 2015. pdf reprint
- Hsiao, L.C. and Doyle, P.S.. "Sequential phase transitions in thermoresponsive nanoemulsions," Soft Matter, 11, 8426-8431, 2015. pdf reprint.
- Chen, L., An, H.Z., and Doyle, P.S.. "Synthesis of non-spherical microcapsules through controlled polyelectrolyte coating of hydrogel templates," Langmuir, 31, 9228-9235. 2015. pdf reprint.
- Lee, H., Lee, S.G., and Doyle, P.S. "Photopatterned oil-reservoir micromodels with tailored wetting properties," Lab Chip, 15, 3047-3055, 2015. pdf reprint
- Le Goff, G.C., Lee, J., Gupta A., Hill, W.A., and Doyle, P.S. "High-throughput contact flow lithography," Advanced Science, 1500149, 2015. pdf reprint
- Dai, L., Renner, C.B., and Doyle, P.S., "Metastable knots in confined semiflexible chains," Macromolecules, 48, 2812-2818, 2015. pdf reprint
- Le Goff, G.C., Srinivas, R.L., Hill, W.A., and Doyle, P.S., "Hydrogel microparticles for biosensing," Eur. Polym. J., 2015. pdf reprint
- Renner, C.B., and Doyle, P.S., "Stretching Self-Entangled DNA Molecules in Elongational Fields," Soft Matter, 11, 205, 2015. pdf reprint
- Dai, L., Renner, C.B., and Doyle, P.S., "Origin of metastable knots in single flexible chains", Phys. Rev. Lett., 114, 037801, 2015. pdf reprint
- Lee, H., Srinivas, R.L., Gupta, A. and Doyle, P.S.,. "Sensitive and Multiplexed On-chip microRNA Profiling in Oil-Isolated Hydrogel Chambers ", Angew. Chem. In. Ed., 54, 2477-2481, 2015. pdf reprint
- Billings, N., Birjiniuk, A., Samad, T.S., Doyle, P.S., and Ribbeck, K.. "Material properties of biofilms – key methods for understanding permeability and mechanics", Rep. Prog. Phys., 78, 036601, 2015. pdf reprint
2014
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Kundukad, B., Yan, J., and Doyle, P.S., "Effect of YOYO-1 on the mechanical properties of DNA", Soft Matter, 10, 9721, 2014. pdf reprint
- Zhang, X., Qu, Y., Chen, H., Rouzina, I., Zhang, S., Doyle, P.S., and Yan, J. "Interconversion between three overstretched DNA structures", JACS, 136, 16073-16080, 2014. pdf reprint
- Bong, K.W., Lee, J., and Doyle, P.S. "Stop Flow Lithography in Perfluoropolyether (PFPE) Microfluidic Channels", Lab Chip, 14, 4680-4687, 2014. pdf reprint
- Eral, H.B., O'Mahony, M., Shaw, R., Trout, B.L., Myerson, A.S., and Doyle, P.S.. "Composite Hydrogels Laden with Crystalline Active Pharmaceutical Ingredients of Controlled Size and Loading", Chemistry of Materials, 26, 6213-6220, 2014. pdf reprint
- Renner, C. and Doyle, P.S. "Untying Knotted DNA with Elongational Flows", ACS Macro Letters, 3, 963–967, 2014. pdf reprint
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Dai, L., Renner, C.B., and Doyle, P.S. "Metastable tight knots in semiflexible chains", Macromolecules, 47 (17), 6135–6140, 2014. pdf reprint
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An, H.Z., Eral, H.B., Chen, L., Chen, M.B., and Doyle, P.S. "Synthesis of Colloidal Microgels using Oxygen-controlled Flow Lithography", Soft Matter, 10, 7595-7605, 2014. pdf reprint
- Chew, S.C., Kundukad, B., Seviour, T.W., Van Der Maarel, J., Yang, L., Rice, S.A., Doyle, P.S., and Kjelleberg, S. "Dynamic Remodeling of Microbial Biofilms by Functionally Distinct Exopolysaccharides", mBio, 5 (4), e01536-14, 2014. pdf reprint
- Birjiniuk, A., Billings, N., Nance, E., Hanes, J., Ribbeck, K., and Doyle, P.S. "Single Particle Tracking Reveals Spatial and Dynamic Organization of the E. coli Biofilm Matrix", New Journal of Physics, 16, 085014, 2014. pdf reprint
- Lim, E.J., Ober, T.J., Edd, J.F., Desai, S.P., Neal, D., Bong, K.W., Doyle, P.S., McKinley, G.H., and Toner, M. "Inertio-elastic Focusing of Bioparticles in Microchannels at Ultra-high Throughput", Nature Communications, 5, 4120. pdf reprint
- Renner, C.B., Du, N., and Doyle, P.S., "Enhanced Electrohydrodynamic Collapse of DNA due to Dilute Polymers", Biomicrofluidics, 8, 034103, 2014. pdf reprint
- Uspal, W.E., and Doyle, P.S., "Self-organizing Microfluidic Crystals", Soft Matter, 10, 5177-5191, 2014. pdf reprint
- Lee, J., Bisso, P.W., Srinivas, R.L., Kim, J.J, Swiston, A.J., and Doyle, P.S., "Universal Process-inert Encoding Architecture for Polymer Microparticles", Nature Materials, 13, 524-529, 2014. pdf reprint
- Dai, L., van der Maarel, J., and Doyle, P.S., "Extended de Gennes Regime of DNA Confined in a Nanochannel", Macromolecules, 47, 2445-2450, 2014. pdf reprint
- Helgeson, M.E., Gao, Y., Moran, S.E., Lee, J., Godfrin, M., Tripathi, A., Bose, A., and Doyle, P.S., "Homogeneous percolation versus arrested phase separation in attractively-driven nanoemulsion colloidal gels", Soft Matter, 10, 3122-33, 2014. pdf reprint
- Eral, H., Lopez-Mejias, V., O'Mahony, M., Trout, B., Myerson, A., and Doyle, P.S. "Biocompatible Alginate Microgel Particles as Heteronucleants and Encapsulating Vehicles for Hydrophilic and Hydrophobic Drugs", Crystal Growth & Design, 14, 2073-2082, 2014. pdf reprint
2013
- Srinivas, R.L., Johnson, S., Doyle, P.S., "Oil-isolated Hydrogel Microstructures for Sensitive Bioassays On-chip", Analytical Chemistry, 86, 12099-12107, 2013. pdf reprint
- Tree, D.R., Muralidhar, A., Doyle, P.S., and Dorfman, K.D., "Is DNA a Good Model Polymer?", Macromolecules, 46, 8369-8382, 2013. pdf reprint
- An, H., Safai, E., Eral, H.B., and Doyle, P.S., "Synthesis of biomimetic oxygen-carrying compartmentalized microparticles using flow lithography", Lab Chip, 13, 4765-4774, 2013. pdf reprint
- Uspal, W.E., Eral, H.B., and Doyle, P.S., "Engineering particle trajectories in microfluidic flows using particle shape", Nat. Commun., 4, 2666, 2013. pdf reprint
- Zhang, C., Hernandez-Garcia, A., Jiang, K., Gong, Z., Guttula, D., Ng, S.Y., Malar, P.P., van Kan, J.A., Dai, L., Doyle, P.S., de Vries, R., and an der Maarel, J.R.C., "Amplified Stretch of Bottlebrush-Coated DNA in Nanofluidic Channels", Nucleic Acids Res., 41, e189, 2013. pdf reprint
- Zhang, C., Guttula, D., Liu, F., Malar, P.P., Ng, S.Y., Dai, L., Doyle, P.S., van Kan, J.A., and van der Maarel, J.R.C., "Effect of H-NS on the elongation and compaction of single DNA molecules in a nanospace", Soft Matter, 9, 9593-9601, 2013. pdf reprint
- Dai, L., and Doyle, P.S, "Comparisons of a polymer in confinement versus applied force", Macromolecules, 46, 6336-6344, 2013. pdf reprint
- Rahman, M., Barikbin, Z., Badruddoza, A.Z., Doyle, P.S., and Khan, S., "Monodisperse Polymeric Ionic Liquid Microgel Beads with Multiple Chemically Switchable Functionalities", Langmuir, 29, 9535-9543, 2013. pdf reprint
- Critchfield, A.S., Yao, G., Jaishankar, A., Friedlander, R.S., Lieleg, O., Doyle, P.S., McKinley, G., House, M., and Ribbeck, K., "Cervical Mucus Properties Stratify Risk for Preterm Birth", PLOS ONE, 8, e69528, 2013. pdf reprint
- Yeo, S., Choi, S., Dien, V., Sow-Peh, Y., Qi, G., Hatton, T.A., Doyle, P.S., and Thio, B.J., "Use of magnetically responsive tea waste to remove lead in waters under environmentally relevant conditions", PLOS ONE, 8, e66648, 2013. pdf reprint
- Kundukad, B., Cong, P., van der Maarel, J.R.C., and Doyle, P.S., "Time-dependent bending rigidity and helical twist of DNA by rearrangement of bound HU protein", Nucleic Acids Res., 41, 8280-8288, 2013. pdf reprint
- Zhang, C., Jiang, K., Liu, F., Doyle, P.S., van Kan, J.A., and van der Maarel, J.R.C., "A Nanofluidic Device for Single Molecule Studies with In Situ Control of Environmental Solution Conditions", Lab Chip, 13, 2821-2826, 2013. pdf reprint
- Dai, L., Tree, D.R., van der Maarel, J.R.C., Dorfman, K.D., and Doyle, P.S., "Revisiting blob theory for DNA diffusivity in slitlike confinement", Phys. Rev. Lett., 110, 168105, 2013. pdf reprint
- Zhang, X., Chen, H., Le, S., Rouzina, I., Doyle, P.S., and Yan, J., "Revealing the Competition between Peeled-ssDNA, Melting Bubbles and S-DNA during DNA Overstretching by Single-Molecule Calorimetry", Proc. Natl. Acad. Sci., 110, 3859-3864, 2013. pdf reprint
- Jones, J.J., van der Maarel, J.R.C., and Doyle, P.S., "Intrachain dynamics of large dsDNA confined to slit-like channels", Phys. Rev. Lett., 110, 068101, 2013. pdf reprint
- Kim, Y.S., Kundukad, B., Allahverdi, A., Nordenskiöld, L., Doyle, P.S., and van der Maarel, J.R.C., "Gelation of the genome by topoisomerase II targeting anticancer agents", Soft Matter, 9, 1656-1663, 2013. pdf reprint
2012
- Choi, N.W., Kim, J., Chapin, S.C., Duong, T., Donohue, E., Pandey, P., Broom, W., Hill, W., and Doyle, P.S., "Multiplexed detection of mRNA using porosity-tuned hydrogel microparticles", Anal. Chem., 84, 9370-9378, 2012. pdf reprint
- Leith, J.S., Tafvizi, A., Huang, F., Uspal, W.E., Doyle, P.S., Fersht, A.R., Mirny, L.A., and van Oijen, A.M., "Sequence-dependent sliding kinetics of p53", Proc. Natl. Acad. Sci., 109, 16552-16557, 2012. pdf reprint
- Dai, L., Ng, S., Doyle, P.S., and van der Maarel, J., "Conformation model of back-folding and looping of a single DNA molecule confined inside a nanochannel", ACS Macro Lett., 1, 1046-1050, 2012. pdf reprint
- Uspal, W.E., and Doyle, P.S., "Collective dynamics of small clusters of particles flowing in a quasi-two-dimensional microchannel", Soft Matter, 8, 10676-10686, 2012. pdf reprint
- Dai, L., van der Maarel, J., and Doyle, P.S., "Effect of nanoslit confinement on the knotting probability of circular DNA", ACS Macro Lett., 1, 732-736, 2012. pdf reprint
- Rich, J.P., Doyle, P.S., McKinley, G.H., "Magnetorheology in an aging, yield stress matrix fluid", Rheol. Acta, 51, 579-593, 2012. pdf reprint
- Suh, S.K., Yuet, K., Hwang, D.K., Bong, K.W., Doyle, P.S., and Hatton, T.A., "Synthesis of Non-spherical Superparamagnetic Particles: In-situ Co-precipitation of Magnetic Nanoparticles in Microgels Prepared by Stop-Flow-Lithography", J. Am. Chem. Soc., 134, 7337-7343, 2012. pdf reprint
- Suh, S.K., Chapin, S.C., Hatton, T.A., and Doyle, P.S., "Synthesis of magnetic hydrogel microparticles for bioassays and tweezer manipulation in microwells", Microfluid. Nanofluid., 13, 665-674, 2012. pdf reprint
- Bong, K.W., Xu, J., Kim, J.-H., Chapin, S.C., Strano, M.S., Gleason, K.K., and Doyle, P.S., "Non-polydimethylsiloxane devices for Oxygen-Free Flow Lithography", Nat. Commun., 3, 805, 2012. pdf reprint
- Zhang, X., Chen, H., Fu, H., Doyle, P.S., and Yan, J., "Two distinct overstretched DNA structures revealed by single-molecule thermodynamics measurements", Proc. Natl. Acad. Sci., 109, 8103-8108, 2012. pdf reprint
- An, H., Helgeson, M.E., and Doyle, P.S, "Nanoemulsion Composite Microgels for Orthogonal Encapsulation and Release",Advanced Materials, 24, 3838-3844, 2012. pdf reprint
- Zhang, C., Gong, Z., Guttula, D., Malar, P., van Kan, J., Doyle, P.S., and van der Maarel, J., "Nanofluidic Compaction of DNA by Like-Charge Protein", J. Phys. Chem. B, 116, 3031-3036, 2012. pdf reprint
- Rich, J.P., McKinley, G.H., and Doyle, P.S., "Arrested Chain Growth During Magnetic Directed Particle Assembly in Yield Stress Matrix Fluids", Langmuir, 28, 3683-3689, 2012. pdf reprint
- Helgeson, M.E., Moran, S., An, H., and Doyle, P.S., "Mesoporous organohydrogels from thermogelling photocrosslinkable nanoemulsions", Nat. Mater., 11, 344-352, 2012. pdf reprint
- Uspal, W.E., and Doyle, P.S., "Scattering and nonlinear bound states of hydrodynamically coupled particles in a narrow channel", Phys. Rev. E, 85, 016325, 2012. pdf reprint
- Dai, L., Jones, J.J., van der Maarel, J.R.C., and Doyle, P.S., "A Systematic Study of DNA Conformation in Slitlike Confinement", Soft Matter, 8, 2972-2982, 2012. pdf reprint
- Diao, Y., Whaley, K.E., Helgeson, M.E., Woldeyes, M.A., Doyle, P.S., Myerson, A.S., Hatton, T.A., and Trout, B.L., "Gel-induced selective crystallization of polymorphs", J. Am. Chem. Soc., 134, 673-684, 2012. pdf reprint
- Diao, Y., Helgeson, M., Siam, Z., Doyle, P.S., Myerson, A., Hatton, T.A., and Trout, B., "Nucleation under Soft Confinement: Role of Polymer-Solute Interactions", Cryst. Growth Des., 12, 508-517, 2012. pdf reprint
2011
- Srinivas, R.L., Chapin, S.C., and Doyle, P.S., "Aptamer Functionalized Microgel Particles for Protein Detection", Anal. Chem.,83, 9138-9145, 2011. pdf reprint
- Jones, J.J., Van Der Maarel, J.R.C., and Doyle, P.S., "Effect of nanochannel geometry on DNA structure in the presence of macromolecular crowding agent", Nano Lett., 11, 5047-5053, 2011. pdf reprint
- Suh, S.K., Bong, K.W., Hatton, T.A., and Doyle, P.S., "Using Stop-Flow Lithography to Produce Opaque Microparticles: Synthesis and Modeling", Langmuir, 27, 13813-13819, 2011. pdf reprint
- Panda, P., Bong, K.W., Hatton, T.A., and Doyle, P.S., "Branched Networks By Directed Assembly of Shape Anisotropic Magnetic Particles.", Langmuir, 27, 13428-13435, 2011. pdf reprint
- Tang, J., Du, N., and Doyle, P.S., "Compression and self-entanglement of single DNA molecules under uniform electric field", PNAS, 108, 16153-16158, 2011. pdf reprint
- Chapin, S.C., and Doyle, P.S., "Ultrasensitive Multiplexed MicroRNA Quantification on Encoded Gel Microparticles Using Rolling Circle Amplification", Anal. Chem., 83, 7179-7185, 2011. pdf reprint. Featured in Chemical & Engineering News and on the MIT front page.
- Rich, J.P., Lammerding, J., McKinley, G.H., and Doyle, P.S., "Nonlinear microrheology of an aging, yield stress fluid using magnetic tweezers", Soft Matter, 7, 9933-9943, 2011. pdf reprint
- Zhang, H., DeConinck, A.J., Slimmer, S.C., Doyle, P.S., Lewis, J.A., and Nuzzo, R.G., "Genotyping by Alkaline Dehybridization Using Graphically Encoded Particles", Chem.-Eur. J., 17, 2867-2873, 2011. pdf reprint
- Trahan, D.W., and Doyle, P.S., "Simulating the Relaxation of Stretched DNA in Slitlike Confinement", Macromolecules, 44, 382-392, 2011. pdf reprint
- Appleyard, D., Chapin, S.C., Srinivas, R.L., and Doyle, P.S., "Barcoded Hydrogel Microparticles for Protein Detection: Synthesis, Assay, and Scanning", Nat. Protoc., 6, 1761-1774, 2011. pdf reprint
- Diao, Y., Helgeson, M.E., Myerson, A.S., Hatton, T.A., Doyle, P.S., and Trout, B.L., "Controlled Nucleation from Solution Using Polymer Microgels", J. Am. Chem. Soc., 133, 3756-3759, 2011. pdf reprint
- Rich, J.P., McKinley, G., and Doyle, P.S., "Size dependence of microprobe dynamics during gelation of a discotic colloidal clay", J. Rheol., 55, 273-299, 2011. pdf reprint
- Bong, K.W., Chapin, S.C., Pregibon, D.C., Baah, D., Floyd-Smith, T.M., and Doyle, P.S., "Compressed-air flow system", Lab Chip, 11, 743-747, 2011. pdf preprint
- Chapin, S.C., Pregibon, D., and Doyle, P.S., "Rapid microRNA Profiling on Encoded Gel Microparticles", Angew. Chem. Int. Ed., 50, 2289-2293, 2011. pdf reprint
- Helgeson, M., Chapin, S.C., and Doyle, P.S., "Hydrogel microparticles from lithographic processes: novel materials for fundamental and applied colloid science", Curr. Opin. Colloid Interface Sci., 16, 106-117, 2011. pdf reprint
2010
- Appleyard, D., Chapin, S.C., and Doyle, P.S., "Multiplexed Protein Quantification with Barcoded Hydrogel Microparticles",Anal. Chem., 83, 193-199, 2010. pdf reprint. Featured in Chemical & Engineering News and NIBIB e-advances.
- Tang, J., Levy, S., Trahan, D., Jones, J., Craighead, H., and Doyle, P.S., "Revisiting the Conformational Dynamics of DNA in Slitlike Confinement", Macromolecules, 43, 7368-7377, 2010. pdf reprint
- Lewis, C., Lin, Y., Yang, C., Manocchi, A., Yuet, K.P., Doyle, P.S., and Yi, H., "Microfluidic Fabrication of Hydrogel Microparticles Containing Functionalized Viral Nanotemplates", Langmuir, 26, 13436-13441, 2010. pdf reprint
- Trahan, D.W., and Doyle, P.S., "DNA collisions with a large, conducting post", Macromolecules, 43, 5424-5432, 2010. pdf reprint
- Tang, J., Trahan, D.W., and Doyle, P.S., "Coil-Stretch Transition of DNA Molecules in Slitlike Confinement", Macromolecules,43, 3081-3089, 2010. pdf reprint
- Bong, K.W., Chapin, S., and Doyle, P.S., "Magnetic Barcoded Hydrogel Microparticles for Multiplexed Detection", Langmuir,26, 8008-8014, 2010. pdf reprint
- Yuet, K.P., Hwang, D.K., Haghgooie, R., and Doyle, P.S., "Multifunctional Superparamagnetic Janus Particles", Langmuir, 26, 4281-4287, 2010. pdf reprint
- Bong, K.W., Bong, K.T., Pregibon, D.C., and Doyle, P.S., "Hydrodynamic Focusing Lithography", Angew. Chem. Int. Ed., 49, 87-90, 2010. pdf reprint
- Haghgooie, R., Toner, M., and Doyle, P.S., "Squishy non-spherical hydrogel microparticles", Macromol. Rapid Commun., 31, 128-134, 2010. pdf reprint
2009
- Panda, P., Yuet, K.P., Dendukuri, D., Hatton, T.A., and Doyle, P.S., "Temporal Response of an Initially Deflected PDMS Channel", New J. Phys., 11, 115001, 2009. pdf reprint
- Chapin, S., Pregibon, D.C., and Doyle, P.S., "High-throughput flow alignment of barcoded hydrogel microparticles", Lab Chip,9, 3100-3109, 2009. pdf reprint
- Dendukuri, D., and Doyle, P.S., "The Synthesis and Assembly of Polymeric Microparticles Using Microfluidics", Advanced Materials, 21, 1-16, 2009. pdf reprint
- Pregibon, D.C., and Doyle, P.S., "Optimization of Encoded Hydrogel Particles for Nucleic Acid Quantification", Anal. Chem.,81, 4873-4881, 2009. pdf reprint
- Haghgooie, R., and Doyle, P.S., "Directed self-assembly of field-responsive fluids in confined geometries", Soft Matter, 5, 1192-1197, 2009. pdf reprint
- Panda, P., Yuet, K.P., Hatton, T.A., and Doyle, P.S., "Tuning Curvature in Flow Lithography: A New Class of Concave/Convex Particles", Langmuir, 25, 5986-5992, 2009. pdf reprint
- Bong, K.W., Pregibon, D.C., and Doyle, P.S., "Lock release lithography for 3D and composite microparticles", Lab Chip, 9, 863-866, 2009. pdf reprint. Featured in Chemical Technology and the Lab Chip inside cover.
- Hwang, D.K., Oakey, J., Toner, M., Arthur, J., Anseth, K., Lee, S., Zeiger, A., Van Vliet, K., and Doyle, P.S., "Stop-Flow Lithography for the Production of Shape-Evolving Degradable Microgel Particles", J. Am. Chem. Soc., 131, 4499-4504, 2009.pdf reprint
- Attia, R., Pregibon, D.C., Doyle, P.S., Viovy, J.-L., and Bartolo, D., "Soft microflow sensors", Lab Chip, 9, 1213-1218, 2009.pdf reprint
- Trahan, D.W. and Doyle, P.S., "Simulation of electrophoretic stretching of DNA in a microcontraction using an obstacle array for conformational preconditioning", Biomicrofluidics, 3, 012803, 2009. pdf reprint
- Im, S.G., Bong, K.W, Lee, C.-H., Doyle, P.S., and Gleason, K., "A Conformal Nano-adhesive via Initiated Chemical Vapor Deposition for Microfluidic Devices", Lab Chip, 9, 411-416, 2009. pdf reprint
2008
- Balducci, A.G., Tang, J., and Doyle, P.S., "Electrophoretic Stretching of DNA Molecules in Cross-slot Nanoslit Channels",Macromolecules, 41, 9914-9918, 2008. pdf reprint
- Im, S.G., Bong, K.W, Kim, B.-S., Baxamusa, S., Hammond, P., Doyle, P.S., and Gleason, K., "Patterning Nanodomains with Orthogonal Functionalities: Solventless Synthesis of Self-Sorting Surfaces", J. Am. Chem. Soc., 130, 14424-14425, 2008. pdf reprint
- Dendukuri, D., Panda, P., Haghgooie, R., Kim, J.M., Hatton, T.A., and Doyle, P.S., "Modeling of Oxygen-Inhibited Free Radical Photopolymerization in a PDMS Microfluidic Device", Macromolecules, 41, 8547-8556, 2008. pdf reprint
- Shepherd, R.F., Panda, P., Bao, Z., Sandhage, K.H., Hatton, T.A., Lewis, J.A., and Doyle, P.S., "Stop-flow lithography of colloidal, glass, and silicon microcomponents", Advanced Materials, 20 4734-4739, 2008. pdf reprint. Featured on the cover page.
- Tan, W.S., Lewis, C., Horelik, N., Pregibon, D., Doyle, P.S., and Yi, H., "Hierarchical Assembly of Viral Nanotemplates with Encoded Microparticles via Nucleic Acid Hybridization", Langmuir, 24, 12483-12488, 2008. pdf reprint
- Hsieh, C.-C., and Doyle, P.S., "Studying Confined Polymers Using Single-Molecule DNA Experiments", Korea-Aust. Rheol. J., 20, 127-142, 2008. pdf reprint
- Savin, T., Spicer, P., and Doyle, P.S., "A Rational Approach to Noise Discrimination in Video Microscopy Particle Tracking",Appl. Phys. Lett., 93, 024102, 2008. pdf reprint
- Hwang, D.K., Dendukuri, D., and Doyle, P.S., "Microfluidic-based synthesis of non-spherical magnetic hydrogel particles", Lab Chip, 8 1640-1647, 2008. pdf reprint
- Balducci, A., and Doyle, P.S., "Conformational Preconditioning by Electrophoresis of DNA through a Finite Obstacle Array",Macromolecules, 41, 5485-5492, 2008. pdf reprint
- Panda, P., Ali, S., Lo, E., Chung, B.G., Hatton, T.A., Khademhosseini, A., and Doyle, P.S., "Stop-Flow Lithography to Generate Cell-Laden Microgel Particles", Lab Chip, 8, 1056-1061, 2008. pdf reprint
- Hsieh, C.-C., Balducci, A., and Doyle, P.S., "Ionic effects on the equilibrium dynamics of DNA confined in nanoslits", Nano Letters, 8, 1683-1688, 2008. pdf reprint
2007
- Balducci, A., Hsieh, C.-C., and Doyle, P.S., "Relaxation of stretched DNA in slit-like confinement", Phys. Rev. Lett., 99, 238102, 2007. pdf reprint
- Mohan, A. and Doyle, P.S., "Effect of disorder on DNA electrophoresis in a microfluidic array of obstacles", Phys. Rev. E,76(4), 040903, 2007. pdf reprint
- Kim, J.M. and Doyle, P.S., "Brownian dynamics simulation of a DNA molecule colliding with a small cylindrical post",Macromolecules, 40, 9151-9163, 2007. pdf reprint
- Mohan, A. and Doyle, P.S., "Stochastic modeling and simulation of DNA electrophoretic separation in a microfluidic obstacle array", Macromolecules, 40, 8794-8806, 2007. pdf reprint
- Jang, J., Dendukuri, D., Hatton, T.A., Thomas, E.L., and Doyle, P.S., "A route to three-dimensional structures in a microfluidic device: Stop flow interference lithography", Angew. Chem. Int. Ed., 46, 9027-9031, 2007. pdf reprint
Also featured in Technology Review and MIT Tech Talk.
- Underhill, P.T. and Doyle, P.S., "DNA stretch during electrophoresis due to a step change in mobility", Phys. Rev. E, 76, 011805, 2007. pdf reprint
- Savin, T. and Doyle, P.S. "Electrostatically-tuned rate of peptide self-assembly resolved by multiple particle tracking", Soft Matter, 3, 1194-1202, 2007. pdf reprint
- Underhill, P.T. and Doyle, P.S., "Accuracy of Bead-Spring Chains in Strong Flow", J. Non-Newt. Fluid Mech., 145, 109-123, 2007. pdf reprint
- Tang, J. and Doyle, P.S., "Electrophoretic stretching of DNA molecules using microscale T-junctions", Appl. Phys. Lett., 90, 224103, 2007. pdf reprint
- Hsieh, C.C., Balducci, A., and Doyle, P.S., "An experimental study of DNA rotational relaxation time in nanoslits",Macromolecules, 40, 5196-5205, 2007. pdf reprint
- Mohan, A. and Doyle, P.S. "Unraveling of a tethered polymer chain in uniform solvent flow", Macromolecules, 40, 4301-4312, 2007. pdf reprint
- Dendukuri, D., Gu, S.S., Pregibon, D.C., Hatton, T.A., and Doyle, P.S., "Stop flow lithography in a microfluidic device", Lab Chip, 7, 818-828, 2007. pdf reprint
Also featured in Chemical Technology.
- Savin, T. and Doyle, P.S. "Statistical and sampling issues when using multiple particle tracking", Phys. Rev. E, 76, 021501, 2007. pdf reprint
- Haghgooie, R. and Doyle, P.S. "Transition from 2D to 3D behavior in the self-assembly of magnetorheological fluids confined in thin-slits", Phys. Rev. E, 75, 061406, 2007. pdf reprint
- Dendukuri, D., Hatton, T.A., and Doyle, P.S. "Synthesis and self-assembly of amphiphilic polymeric microparticles",Langmuir, 23, 4669-4674, 2007. pdf reprint
- Pregibon, D.C., Toner M., and Doyle, P.S. "Multifunctional encoded particles for high-throughput biomolecule analysis",Science, 315, 1393-1396, 2007. pdf reprint
Also featured in Nature Chemical Biology, Nature Methods, Technology Review, and the MIT Homepage.
- Haghgooie, R. and Doyle, P.S. "MR fluid structure in quasi-2D", Euro. Phys. Lett., 77, 18002, 2007. pdf reprint
- Kim, J.M. and Doyle, P.S. "Design and numerical simulation of a DNA electrophoretic stretching device", Lab Chip, 7(2), 213-225, 2007. pdf reprint
2006
- Randall, G.C. and Doyle, P.S. "Collision of a DNA polymer with a small obstacle", Macromolecules, 39(22), 7734-7745, 2006.pdf reprint
- Balducci, A., Mao, P., Han, J. and Doyle, P.S. "Double-Stranded DNA Diffusion in Slit-like Nanochannels", Macromolecules,39(18), 6273-6281, 2006. pdf reprint
- Kim, J.M. and Doyle, P.S. "A Brownian dynamics-finite element method for simulating DNA electrophoresis in non-homogeneous electric fields", J. Chem. Phys., 125(7), 074906, 2006. pdf reprint
- Underhill, P.T. and Doyle, P.S. "Alternative spring force law for bead-spring chain models of the worm-like chain", J. Rheol.,50(4), 513-529, 2006. pdf reprint
- Pregibon, D.C., Toner, M., and Doyle, P.S. "Magnetically and Biologically Active Bead-Patterned Hydrogels", Langmuir, 22, 5122-5128, 2006.pdf reprint
- Dendukuri, D., Pregibon, D.C., Collins, J., Hatton, T.A. and Doyle, P.S. "Continuous Flow Lithography for High-Throughput Microparticle Synthesis", Nat. Mater., 5, 365-369, May 2006.pdf reprint Also featured in Technology Review, Nature,Analytical Chemistry, and Lab on a Chip.
- Randall, G.C., Schultz K.M., and Doyle, P.S. "Methods to Electrophoretically Stretch DNA: Microcontractions, Gels, and Hybrid Gel-Microcontraction Devices", Lab Chip, 6(4), 516-525, 2006.pdf reprint
- Haghgooie, R., Li, C., and Doyle, P.S. "Experimental study of structure and dynamics in a monolayer of paramagnetic colloids confined by parallel hard walls", Langmuir, 22, 3601-3605, 2006. pdf reprint
2005
- Underhill, P.T. and Doyle, P.S. "Development of bead-spring polymer models using the constant extension ensemble", J. Rheol. , 49(5), 963-987, 2005.pdf reprint
- Randall, G.C. and Doyle, P.S. "Permeation driven flow in in poly(dimethylsiloxane) microfluidic devices", PNAS , 102(31), 10813-10818, 2005.pdf reprint
- Haghgooie, R. and Doyle, P.S. "Structure and dynamics of repulsive magnetorheological colloids in two-dimensional channels", Phys. Rev. E, 72(1), 011405, 2005.pdf reprint
- Dendukuri, D., Tsoi, K., Hatton, T.A., and Doyle, P.S. "Controlled Synthesis of Non-Spherical Microparticles Using Microfluidics", Langmuir, 21, 2113-2116, 2005.pdf reprint
- Savin, T. and Doyle, P.S. "Role of a finite exposure time on measuring an elastic modulus using microrheology", Phys. Rev. E, 71, 041106, 2005.pdf reprint
- Randall, G.C. and Doyle, P.S. "DNA Deformation in Electric Fields: DNA Driven Past a Cylindrical Obstruction",Macromolecules, 38, 2410-2418, 2005.pdf reprint
- Savin, T. and Doyle, P.S. "Static and dynamic errors in particle tracking microrheology", Biophys. J., 88, 623-638, 2005.pdf reprint
2004
- Chen, Y.-L, Graham, M.D., de Pablo, J.J., Randall, G.C., Gupta, M. and Doyle, P.S. "Conformation and Dynamics of Single DNA in Parallel-Plate Slit Microchannels", Phys. Rev. E, 70, 060901 (R) 2004.pdf reprint
- Haghgooie, R. and Doyle, P.S. "Structural analysis of a dipole system in two-dimensional channels", Phys. Rev. E, 70, 061408, 2004.pdf reprint
- Doyle, P.S. and Underhill, P.T. "Brownian dynamics simulations of polymers and soft matter", In S. Yip, (ed.), Handbook of Materials Modeling, 2005, Springer, 2619-2630 pdf preprint
- Underhill, P.T. and Doyle, P.S. "On the Coarse-graining of Polymers into Bead-Spring Chains", J. Non-Newt. Fluid Mech.,122(1),3-31, 2004 pdf reprint
- Randall, G.C. and Doyle, P.S. "Electrophoretic collision of a DNA molecule with an insulating post", Phys. Rev. Lett., 93(5), 058102, 2004. pdf reprint
2003
- Wagner, C., Amarouchene, Y., Doyle P.S., Bonn, D., "Turbulent-drag reduction of polyelectrolyte solutions: Relation with the elongational viscosity", Europhys. Lett., 64(6), 823-829, 2003. pdf reprint
2002
- Doyle, P.S., Bibette, J., Bancaud, A., Viovy, J.L., "Self-Assembled Magnetic Matrices for DNA Separation in Lab on a Chip",Science , 295, 2237, 2002. pdf reprint
2001
- Ladoux, B., Quivy, J.P., Doyle, P.S., , Almouzni, G., Viovy, J.L., "Direct imaging of single-molecules: from dynamics of single DNA chain to the study of complex DNA-protein intereactions", Science Progress , 84, 267-290, 2001. pdf reprint
2000
- Ladoux, B., Quivy, J.P., Doyle, P.S., du Roure, O., Almouzni, G., Viovy, J.L., "Fast Kinetics of Chromatin Assembly Revealed by Single-Molecule Videomicroscopy and Scanning Force Microscopy", PNAS , 97, 14251-14256, 2000. pdf reprint
- Ladoux, B. and Doyle, P.S., "Stretching Tethered DNA Chains in Shear Flow", Europhysics Lett. , 52, 511-517, 2000. pdf reprint
- Doyle, P.S., Ladoux, B., Viovy, J.L., "Dynamics of a Tethered Polymer in Shear Flow", Phys. Rev. Lett. , 84, 4769-4772, 2000. pdf reprint
1998
- Doyle, P.S., Shaqfeh, E.S.G., Gast, A.P., "Rheology of Polymer Brushes: A Brownian Dynamics Study", Macromolecules , 31, 5468-5474, 1998. pdf reprint
- Doyle, P.S., Shaqfeh, E.S.G., McKinley, G.H., Spiegelberg, S.H., "Relaxation of Dilute Polymer Solutions Following Extensional Flow", Journal of Non-Newtonian Fluid Mechanics, 76, 79-110, 1998. pdf reprint
- Doyle, P.S., Shaqfeh, E.S.G., "Dynamic Simulation of Freely-Draining, Flexible Bead-Rod Chains: Start-Up of Extensional and Shear Flow", Journal of Non-Newtonian Fluid Mechanics, 76, 43-78, 1998. pdf reprint
1997
- Doyle, P.S., Shaqfeh, E.S.G., Gast, A.P. "Rheology of "Wet" Polymer Brushes via Brownian Dynamics Simulation: Steady vs. Oscillatory Shear", Phys. Rev. Lett., 78, 1182-1185, 1997. pdf reprint
- Doyle, P.S., Shaqfeh, E.S.G., Gast, A.P. "Dynamic Simulation of Freely Draining Flexible Polymers in Steady Linear Flows",Journal of Fluid Mechanics, 334, 251-291, 1997. pdf reprint