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Numerical studies of electrokinetic control of DNA concentration in a closed-end microchannel.

Electrophoresis

Daghighi Y, Li D.
PMID: 20191548
Electrophoresis. 2010 Mar;31(5):868-78. doi: 10.1002/elps.200900447.

A major challenge in lab-on-a-chip devices is how to concentrate sample molecules from a dilute solution, which is critical to the effectiveness and the detection limit of on-chip bio-chemical reactions. A numerical study of sample concentration control by electrokinetic...

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Daghighi Y, Li D. Numerical studies of electrokinetic control of DNA concentration in a closed-end microchannel. Electrophoresis. 2010;31(5):868-78doi: 10.1002/elps.200900447.
Daghighi, Y., & Li, D. (2010). Numerical studies of electrokinetic control of DNA concentration in a closed-end microchannel. Electrophoresis, 31(5), 868-78. https://doi.org/10.1002/elps.200900447
Daghighi, Yasaman, and Li, Dongqing. "Numerical studies of electrokinetic control of DNA concentration in a closed-end microchannel." Electrophoresis vol. 31,5 (2010): 868-78. doi: https://doi.org/10.1002/elps.200900447
Daghighi Y, Li D. Numerical studies of electrokinetic control of DNA concentration in a closed-end microchannel. Electrophoresis. 2010 Mar;31(5):868-78. doi: 10.1002/elps.200900447. PMID: 20191548.
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Enhancing MAD F(A) data for substructure determination.

Acta crystallographica. Section D, Biological crystallography

Xu H.
PMID: 20693694
Acta Crystallogr D Biol Crystallogr. 2010 Aug;66:945-9. doi: 10.1107/S0907444910025783. Epub 2010 Jul 14.

Heavy-atom substructure determination is a critical step in phasing an unknown macromolecular structure. Dual-space (Shake-and-Bake) recycling is a very effective procedure for locating the substructure (heavy) atoms using F(A) data estimated from multiple-wavelength anomalous diffraction. However, the estimated F(A)...

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Xu H. Enhancing MAD F(A) data for substructure determination. Acta Crystallogr D Biol Crystallogr. 2010;66:945-9doi: 10.1107/S0907444910025783.
Xu, H. (2010). Enhancing MAD F(A) data for substructure determination. Acta crystallographica. Section D, Biological crystallography, 66945-9. https://doi.org/10.1107/S0907444910025783
Xu, Hongliang. "Enhancing MAD F(A) data for substructure determination." Acta crystallographica. Section D, Biological crystallography vol. 66 (2010): 945-9. doi: https://doi.org/10.1107/S0907444910025783
Xu H. Enhancing MAD F(A) data for substructure determination. Acta Crystallogr D Biol Crystallogr. 2010 Aug;66:945-9. doi: 10.1107/S0907444910025783. Epub 2010 Jul 14. PMID: 20693694; PMCID: PMC2917277.
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Many-body theory of synchronization by long-range interactions.

Physical review letters

Uchida N.
PMID: 21405469
Phys Rev Lett. 2011 Feb 11;106(6):064101. doi: 10.1103/PhysRevLett.106.064101. Epub 2011 Feb 08.

Synchronization of coupled oscillators on a d-dimensional lattice with the power-law coupling G(r) = g0/rα and randomly distributed intrinsic frequency is analyzed. A systematic perturbation theory is developed to calculate the order parameter profile and correlation functions in powers...

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Uchida N. Many-body theory of synchronization by long-range interactions. Phys Rev Lett. 2011;106(6):064101doi: 10.1103/PhysRevLett.106.064101.
Uchida, N. (2011). Many-body theory of synchronization by long-range interactions. Physical review letters, 106(6), 064101. https://doi.org/10.1103/PhysRevLett.106.064101
Uchida, Nariya. "Many-body theory of synchronization by long-range interactions." Physical review letters vol. 106,6 (2011): 064101. doi: https://doi.org/10.1103/PhysRevLett.106.064101
Uchida N. Many-body theory of synchronization by long-range interactions. Phys Rev Lett. 2011 Feb 11;106(6):064101. doi: 10.1103/PhysRevLett.106.064101. Epub 2011 Feb 08. PMID: 21405469.
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Multisurface coding simulations of the restricted solid-on-solid model in four dimensions.

Physical review. E, Statistical, nonlinear, and soft matter physics

Pagnani A, Parisi G.
PMID: 23410269
Phys Rev E Stat Nonlin Soft Matter Phys. 2013 Jan;87(1):010102. doi: 10.1103/PhysRevE.87.010102. Epub 2013 Jan 14.

We study the restricted solid-on-solid model for surface growth in spatial dimension d=4 by means of a multisurface coding technique that allows us to analyze samples of size up to 256(4) in the steady-state regime. For such large systems...

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Pagnani A, Parisi G. Multisurface coding simulations of the restricted solid-on-solid model in four dimensions. Phys Rev E Stat Nonlin Soft Matter Phys. 2013;87(1):010102doi: 10.1103/PhysRevE.87.010102.
Pagnani, A., & Parisi, G. (2013). Multisurface coding simulations of the restricted solid-on-solid model in four dimensions. Physical review. E, Statistical, nonlinear, and soft matter physics, 87(1), 010102. https://doi.org/10.1103/PhysRevE.87.010102
Pagnani, Andrea, and Parisi, Giorgio. "Multisurface coding simulations of the restricted solid-on-solid model in four dimensions." Physical review. E, Statistical, nonlinear, and soft matter physics vol. 87,1 (2013): 010102. doi: https://doi.org/10.1103/PhysRevE.87.010102
Pagnani A, Parisi G. Multisurface coding simulations of the restricted solid-on-solid model in four dimensions. Phys Rev E Stat Nonlin Soft Matter Phys. 2013 Jan;87(1):010102. doi: 10.1103/PhysRevE.87.010102. Epub 2013 Jan 14. PMID: 23410269.
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CoNtRol: an open source framework for the analysis of chemical reaction networks.

Bioinformatics (Oxford, England)

Donnell P, Banaji M, Marginean A, Pantea C.
PMID: 24489373
Bioinformatics. 2014 Jun 01;30(11):1633-4. doi: 10.1093/bioinformatics/btu063. Epub 2014 Jan 30.

UNLABELLED: We introduce CoNtRol, a web-based framework for analysis of chemical reaction networks (CRNs). It is designed to be both extensible and simple to use, complementing existing CRN-related tools. CoNtRol currently implements a number of necessary and/or sufficient structural...

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Donnell P, Banaji M, Marginean A, et al. CoNtRol: an open source framework for the analysis of chemical reaction networks. Bioinformatics. 2014;30(11):1633-4doi: 10.1093/bioinformatics/btu063.
Donnell, P., Banaji, M., Marginean, A., & Pantea, C. (2014). CoNtRol: an open source framework for the analysis of chemical reaction networks. Bioinformatics (Oxford, England), 30(11), 1633-4. https://doi.org/10.1093/bioinformatics/btu063
Donnell, Pete, et al. "CoNtRol: an open source framework for the analysis of chemical reaction networks." Bioinformatics (Oxford, England) vol. 30,11 (2014): 1633-4. doi: https://doi.org/10.1093/bioinformatics/btu063
Donnell P, Banaji M, Marginean A, Pantea C. CoNtRol: an open source framework for the analysis of chemical reaction networks. Bioinformatics. 2014 Jun 01;30(11):1633-4. doi: 10.1093/bioinformatics/btu063. Epub 2014 Jan 30. PMID: 24489373.
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The solubility parameters of ionic liquids.

International journal of molecular sciences

Marciniak A.
PMID: 20559495
Int J Mol Sci. 2010 Apr 27;11(5):1973-90. doi: 10.3390/ijms11051973.

The Hildebrand's solubility parameters have been calculated for 18 ionic liquids from the inverse gas chromatography measurements of the activity coefficients at infinite dilution. Retention data were used for the calculation. The solubility parameters are helpful for the prediction...

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Marciniak A. The solubility parameters of ionic liquids. Int J Mol Sci. 2010;11(5):1973-90doi: 10.3390/ijms11051973.
Marciniak, A. (2010). The solubility parameters of ionic liquids. International journal of molecular sciences, 11(5), 1973-90. https://doi.org/10.3390/ijms11051973
Marciniak, Andrzej. "The solubility parameters of ionic liquids." International journal of molecular sciences vol. 11,5 (2010): 1973-90. doi: https://doi.org/10.3390/ijms11051973
Marciniak A. The solubility parameters of ionic liquids. Int J Mol Sci. 2010 Apr 27;11(5):1973-90. doi: 10.3390/ijms11051973. PMID: 20559495; PMCID: PMC2885087.
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[A persistent model of the reptation movement of a DNA molecule].

Biofizika

Nemtsov VB, Kamliuk AN, Shirko AV.
PMID: 20429276
Biofizika. 2010 Mar-Apr;55(2):233-8.

By using a persistent model of the movement of a DNA molecule, the penetration of the DNA molecule into a cell has been described. The method enables one to estimate the time and the rate of the passage of...

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Nemtsov VB, Kamliuk AN, Shirko AV. [A persistent model of the reptation movement of a DNA molecule]. Biofizika. 2010;55(2):233-8
Nemtsov, V. B., Kamliuk, A. N., & Shirko, A. V. (2010). [A persistent model of the reptation movement of a DNA molecule]. Biofizika, 55(2), 233-8.
Nemtsov, V B, et al. "[A persistent model of the reptation movement of a DNA molecule]." Biofizika vol. 55,2 (2010): 233-8.
Nemtsov VB, Kamliuk AN, Shirko AV. [A persistent model of the reptation movement of a DNA molecule]. Biofizika. 2010 Mar-Apr;55(2):233-8. Russian. PMID: 20429276.
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Statistical assessment of change point detectors for single molecule kinetic analysis.

The Journal of membrane biology

Parsons SP, Huizinga JD.
PMID: 23652811
J Membr Biol. 2013 May;246(5):407-20. doi: 10.1007/s00232-013-9553-8. Epub 2013 May 08.

Change point detectors (CPDs) are used to segment recordings of single molecules for the purpose of kinetic analysis. The assessment of the accuracy of CPD algorithms has usually been based on testing them with simulated data. However, there have...

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Parsons SP, Huizinga JD. Statistical assessment of change point detectors for single molecule kinetic analysis. J Membr Biol. 2013;246(5):407-20doi: 10.1007/s00232-013-9553-8.
Parsons, S. P., & Huizinga, J. D. (2013). Statistical assessment of change point detectors for single molecule kinetic analysis. The Journal of membrane biology, 246(5), 407-20. https://doi.org/10.1007/s00232-013-9553-8
Parsons, Sean P, and Huizinga, Jan D. "Statistical assessment of change point detectors for single molecule kinetic analysis." The Journal of membrane biology vol. 246,5 (2013): 407-20. doi: https://doi.org/10.1007/s00232-013-9553-8
Parsons SP, Huizinga JD. Statistical assessment of change point detectors for single molecule kinetic analysis. J Membr Biol. 2013 May;246(5):407-20. doi: 10.1007/s00232-013-9553-8. Epub 2013 May 08. PMID: 23652811.
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Retrieval of relevant parameters of natural multilayer systems by means of bio-inspired optimization strategies.

Applied optics

Macías D, Luna A, Skigin D, Inchaussandague M, Vial A, Schinca D.
PMID: 23670781
Appl Opt. 2013 Apr 10;52(11):2511-20. doi: 10.1364/AO.52.002511.

Natural photonic structures exhibit remarkable color effects such as metallic appearance and iridescence. A rigorous study of the electromagnetic response of such complex structures requires to accurately determine some of their relevant optical parameters, such as the refractive indices...

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Macías D, Luna A, Skigin D, et al. Retrieval of relevant parameters of natural multilayer systems by means of bio-inspired optimization strategies. Appl Opt. 2013;52(11):2511-20doi: 10.1364/AO.52.002511.
Macías, D., Luna, A., Skigin, D., Inchaussandague, M., Vial, A., & Schinca, D. (2013). Retrieval of relevant parameters of natural multilayer systems by means of bio-inspired optimization strategies. Applied optics, 52(11), 2511-20. https://doi.org/10.1364/AO.52.002511
Macías, Demetrio, et al. "Retrieval of relevant parameters of natural multilayer systems by means of bio-inspired optimization strategies." Applied optics vol. 52,11 (2013): 2511-20. doi: https://doi.org/10.1364/AO.52.002511
Macías D, Luna A, Skigin D, Inchaussandague M, Vial A, Schinca D. Retrieval of relevant parameters of natural multilayer systems by means of bio-inspired optimization strategies. Appl Opt. 2013 Apr 10;52(11):2511-20. doi: 10.1364/AO.52.002511. PMID: 23670781.
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Topological relics of symmetry breaking: winding numbers and scaling tilts from random vortex-antivortex pairs.

Journal of physics. Condensed matter : an Institute of Physics journal

Zurek WH.
PMID: 24025395
J Phys Condens Matter. 2013 Oct 09;25(40):404209. doi: 10.1088/0953-8984/25/40/404209. Epub 2013 Sep 11.

I show that random distributions of vortex-antivortex pairs (rather than of individual vortices) lead to scaling of typical winding numbers W trapped inside a loop of circumference C with the square root of that circumference, W ≈√C, when the...

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Zurek WH. Topological relics of symmetry breaking: winding numbers and scaling tilts from random vortex-antivortex pairs. J Phys Condens Matter. 2013;25(40):404209doi: 10.1088/0953-8984/25/40/404209.
Zurek, W. H. (2013). Topological relics of symmetry breaking: winding numbers and scaling tilts from random vortex-antivortex pairs. Journal of physics. Condensed matter : an Institute of Physics journal, 25(40), 404209. https://doi.org/10.1088/0953-8984/25/40/404209
Zurek, W H. "Topological relics of symmetry breaking: winding numbers and scaling tilts from random vortex-antivortex pairs." Journal of physics. Condensed matter : an Institute of Physics journal vol. 25,40 (2013): 404209. doi: https://doi.org/10.1088/0953-8984/25/40/404209
Zurek WH. Topological relics of symmetry breaking: winding numbers and scaling tilts from random vortex-antivortex pairs. J Phys Condens Matter. 2013 Oct 09;25(40):404209. doi: 10.1088/0953-8984/25/40/404209. Epub 2013 Sep 11. PMID: 24025395.
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Kosterlitz-Thouless and Potts transitions in a generalized XY model.

Physical review. E, Statistical, nonlinear, and soft matter physics

Canova GA, Levin Y, Arenzon JJ.
PMID: 24580191
Phys Rev E Stat Nonlin Soft Matter Phys. 2014 Jan;89(1):012126. doi: 10.1103/PhysRevE.89.012126. Epub 2014 Jan 17.

We present extensive numerical simulations of a generalized XY model with nematic-like terms recently proposed by Poderoso et al. [ Phys. Rev. Lett. 106 067202 (2011)]. Using finite size scaling and focusing on the q=3 case, we locate the...

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Canova GA, Levin Y, Arenzon JJ. Kosterlitz-Thouless and Potts transitions in a generalized XY model. Phys Rev E Stat Nonlin Soft Matter Phys. 2014;89(1):012126doi: 10.1103/PhysRevE.89.012126.
Canova, G. A., Levin, Y., & Arenzon, J. J. (2014). Kosterlitz-Thouless and Potts transitions in a generalized XY model. Physical review. E, Statistical, nonlinear, and soft matter physics, 89(1), 012126. https://doi.org/10.1103/PhysRevE.89.012126
Canova, Gabriel A, et al. "Kosterlitz-Thouless and Potts transitions in a generalized XY model." Physical review. E, Statistical, nonlinear, and soft matter physics vol. 89,1 (2014): 012126. doi: https://doi.org/10.1103/PhysRevE.89.012126
Canova GA, Levin Y, Arenzon JJ. Kosterlitz-Thouless and Potts transitions in a generalized XY model. Phys Rev E Stat Nonlin Soft Matter Phys. 2014 Jan;89(1):012126. doi: 10.1103/PhysRevE.89.012126. Epub 2014 Jan 17. PMID: 24580191.
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Level-number variance and spectral compressibility in a critical two-dimensional random-matrix model.

Physical review. E, Statistical, nonlinear, and soft matter physics

Ossipov A, Rushkin I, Cuevas E.
PMID: 22463172
Phys Rev E Stat Nonlin Soft Matter Phys. 2012 Feb;85(2):021127. doi: 10.1103/PhysRevE.85.021127. Epub 2012 Feb 21.

We study level-number variance in a two-dimensional random matrix model characterized by a power-law decay of the matrix elements. The amplitude of the decay is controlled by the parameter b. We find analytically that at small values of b...

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Ossipov A, Rushkin I, Cuevas E. Level-number variance and spectral compressibility in a critical two-dimensional random-matrix model. Phys Rev E Stat Nonlin Soft Matter Phys. 2012;85(2):021127doi: 10.1103/PhysRevE.85.021127.
Ossipov, A., Rushkin, I., & Cuevas, E. (2012). Level-number variance and spectral compressibility in a critical two-dimensional random-matrix model. Physical review. E, Statistical, nonlinear, and soft matter physics, 85(2), 021127. https://doi.org/10.1103/PhysRevE.85.021127
Ossipov, A, et al. "Level-number variance and spectral compressibility in a critical two-dimensional random-matrix model." Physical review. E, Statistical, nonlinear, and soft matter physics vol. 85,2 (2012): 021127. doi: https://doi.org/10.1103/PhysRevE.85.021127
Ossipov A, Rushkin I, Cuevas E. Level-number variance and spectral compressibility in a critical two-dimensional random-matrix model. Phys Rev E Stat Nonlin Soft Matter Phys. 2012 Feb;85(2):021127. doi: 10.1103/PhysRevE.85.021127. Epub 2012 Feb 21. PMID: 22463172.
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Showing 25 to 36 of 125 entries