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Showing 1 to 12 of 19 entries
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Quantification of nanoscale density fluctuations using electron microscopy: Light-localization properties of biological cells.

Applied physics letters

Pradhan P, Damania D, Joshi HM, Turzhitsky V, Subramanian H, Roy HK, Taflove A, Dravid VP, Backman V.
PMID: 21221251
Appl Phys Lett. 2010 Dec 13;97(24):243704. doi: 10.1063/1.3524523. Epub 2010 Dec 17.

We report a study of the nanoscale mass-density fluctuations of heterogeneous optical dielectric media, including nanomaterials and biological cells, by quantifying their nanoscale light-localization properties. Transmission electron microscope images of the media are used to construct corresponding effective disordered...

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Pradhan P, Damania D, Joshi HM, et al. Quantification of nanoscale density fluctuations using electron microscopy: Light-localization properties of biological cells. Appl Phys Lett. 2010;97(24):243704doi: 10.1063/1.3524523.
Pradhan, P., Damania, D., Joshi, H. M., Turzhitsky, V., Subramanian, H., Roy, H. K., Taflove, A., Dravid, V. P., & Backman, V. (2010). Quantification of nanoscale density fluctuations using electron microscopy: Light-localization properties of biological cells. Applied physics letters, 97(24), 243704. https://doi.org/10.1063/1.3524523
Pradhan, Prabhakar, et al. "Quantification of nanoscale density fluctuations using electron microscopy: Light-localization properties of biological cells." Applied physics letters vol. 97,24 (2010): 243704. doi: https://doi.org/10.1063/1.3524523
Pradhan P, Damania D, Joshi HM, Turzhitsky V, Subramanian H, Roy HK, Taflove A, Dravid VP, Backman V. Quantification of nanoscale density fluctuations using electron microscopy: Light-localization properties of biological cells. Appl Phys Lett. 2010 Dec 13;97(24):243704. doi: 10.1063/1.3524523. Epub 2010 Dec 17. PMID: 21221251; PMCID: PMC3017571.
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Scaling of Linking and Writhing Numbers for Spherically Confined and Topologically Equilibrated Flexible Polymers.

Journal of statistical physics

Marko JF.
PMID: 21686050
J Stat Phys. 2011 Apr;142(6):1353-1370. doi: 10.1007/s10955-011-0172-4.

Scaling laws for Gauss linking number Ca and writhing number Wr for spherically confined flexible polymers with thermally fluctuating topology are analyzed. For ideal (phantom) polymers each of N segments of length unity confined to a spherical pore of...

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Marko JF. Scaling of Linking and Writhing Numbers for Spherically Confined and Topologically Equilibrated Flexible Polymers. J Stat Phys. 2011;142(6):1353-1370doi: 10.1007/s10955-011-0172-4.
Marko, J. F. (2011). Scaling of Linking and Writhing Numbers for Spherically Confined and Topologically Equilibrated Flexible Polymers. Journal of statistical physics, 142(6), 1353-1370. https://doi.org/10.1007/s10955-011-0172-4
Marko, John F. "Scaling of Linking and Writhing Numbers for Spherically Confined and Topologically Equilibrated Flexible Polymers." Journal of statistical physics vol. 142,6 (2011): 1353-1370. doi: https://doi.org/10.1007/s10955-011-0172-4
Marko JF. Scaling of Linking and Writhing Numbers for Spherically Confined and Topologically Equilibrated Flexible Polymers. J Stat Phys. 2011 Apr;142(6):1353-1370. doi: 10.1007/s10955-011-0172-4. PMID: 21686050; PMCID: PMC3115200.
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Physicochemical mechanotransduction alters nuclear shape and mechanics via heterochromatin formation.

Molecular biology of the cell

Stephens AD, Liu PZ, Kandula V, Chen H, Almassalha LM, Herman C, Backman V, O'Halloran T, Adam SA, Goldman RD, Banigan EJ, Marko JF.
PMID: 31216230
Mol Biol Cell. 2019 Jun 19;mbcE19050286T. doi: 10.1091/mbc.E19-05-0286-T. Epub 2019 Jun 19.

The nucleus houses, organizes, and protects chromatin to ensure genome integrity and proper gene expression, but how the nucleus adapts mechanically to changes in the extracellular environment is poorly understood. Recent studies have revealed that extracellular physical stresses induce...

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Stephens AD, Liu PZ, Kandula V, et al. Physicochemical mechanotransduction alters nuclear shape and mechanics via heterochromatin formation. Mol Biol Cell. 2019;mbcE19050286Tdoi: 10.1091/mbc.E19-05-0286-T.
Stephens, A. D., Liu, P. Z., Kandula, V., Chen, H., Almassalha, L. M., Herman, C., Backman, V., O'Halloran, T., Adam, S. A., Goldman, R. D., Banigan, E. J., & Marko, J. F. (2019). Physicochemical mechanotransduction alters nuclear shape and mechanics via heterochromatin formation. Molecular biology of the cell, mbcE19050286T. https://doi.org/10.1091/mbc.E19-05-0286-T
Stephens, Andrew D, et al. "Physicochemical mechanotransduction alters nuclear shape and mechanics via heterochromatin formation." Molecular biology of the cell vol. (2019): mbcE19050286T. doi: https://doi.org/10.1091/mbc.E19-05-0286-T
Stephens AD, Liu PZ, Kandula V, Chen H, Almassalha LM, Herman C, Backman V, O'Halloran T, Adam SA, Goldman RD, Banigan EJ, Marko JF. Physicochemical mechanotransduction alters nuclear shape and mechanics via heterochromatin formation. Mol Biol Cell. 2019 Jun 19;mbcE19050286T. doi: 10.1091/mbc.E19-05-0286-T. Epub 2019 Jun 19. PMID: 31216230.
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Education and Outreach in Physical Sciences in Oncology.

Trends in cancer

Walker SA, Pham A, Nizzero S, Kim M, Riter B, Bletz J, Judge S, Phillips B, Noble D, Murray D, Wetzel E, Samson S, McMahon M, Flink C, Couch J, Tomlin C, Swanson K, Anderson ARA, Odde D, Shen H, Hughes S, Zahir N, Enderling H, Wolfram J.
PMID: 33168416
Trends Cancer. 2021 Jan;7(1):3-9. doi: 10.1016/j.trecan.2020.10.007. Epub 2020 Nov 07.

Physical sciences are often overlooked in the field of cancer research. The Physical Sciences in Oncology Initiative was launched to integrate physics, mathematics, chemistry, and engineering with cancer research and clinical oncology through education, outreach, and collaboration. Here, we...

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Walker SA, Pham A, Nizzero S, et al. Education and Outreach in Physical Sciences in Oncology. Trends Cancer. 2020;7(1):3-9doi: 10.1016/j.trecan.2020.10.007.
Walker, S. A., Pham, A., Nizzero, S., Kim, M., Riter, B., Bletz, J., Judge, S., Phillips, B., Noble, D., Murray, D., Wetzel, E., Samson, S., McMahon, M., Flink, C., Couch, J., Tomlin, C., Swanson, K., Anderson, A. R. A., Odde, D., Shen, H., Hughes, S., Zahir, N., Enderling, H., & Wolfram, J. (2021). Education and Outreach in Physical Sciences in Oncology. Trends in cancer, 7(1), 3-9. https://doi.org/10.1016/j.trecan.2020.10.007
Walker, Sierra A, et al. "Education and Outreach in Physical Sciences in Oncology." Trends in cancer vol. 7,1 (2021): 3-9. doi: https://doi.org/10.1016/j.trecan.2020.10.007
Walker SA, Pham A, Nizzero S, Kim M, Riter B, Bletz J, Judge S, Phillips B, Noble D, Murray D, Wetzel E, Samson S, McMahon M, Flink C, Couch J, Tomlin C, Swanson K, Anderson ARA, Odde D, Shen H, Hughes S, Zahir N, Enderling H, Wolfram J. Education and Outreach in Physical Sciences in Oncology. Trends Cancer. 2021 Jan;7(1):3-9. doi: 10.1016/j.trecan.2020.10.007. Epub 2020 Nov 07. PMID: 33168416; PMCID: PMC7895467.
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Effects of shape and size of cobalt ferrite nanostructures on their MRI contrast and thermal activation.

The journal of physical chemistry. C, Nanomaterials and interfaces

Joshi HM, Lin YP, Aslam M, Prasad PV, Schultz-Sikma EA, Edelman R, Meade T, Dravid VP.
PMID: 21850276
J Phys Chem C Nanomater Interfaces. 2009;113(41):17761-17767. doi: 10.1021/jp905776g.

Cobalt ferrite magnetic nanostructures were synthesized via a high temperature solution phase method. Spherical nanostructures of various sizes were synthesized with the help of seed mediated growth of the nanostructures in organic phase, while faceted irregular (FI) cobalt ferrite...

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Joshi HM, Lin YP, Aslam M, et al. Effects of shape and size of cobalt ferrite nanostructures on their MRI contrast and thermal activation. J Phys Chem C Nanomater Interfaces. 2009;113(41):17761-17767doi: 10.1021/jp905776g.
Joshi, H. M., Lin, Y. P., Aslam, M., Prasad, P. V., Schultz-Sikma, E. A., Edelman, R., Meade, T., & Dravid, V. P. (2009). Effects of shape and size of cobalt ferrite nanostructures on their MRI contrast and thermal activation. The journal of physical chemistry. C, Nanomaterials and interfaces, 113(41), 17761-17767. https://doi.org/10.1021/jp905776g
Joshi, Hrushikesh M, et al. "Effects of shape and size of cobalt ferrite nanostructures on their MRI contrast and thermal activation." The journal of physical chemistry. C, Nanomaterials and interfaces vol. 113,41 (2009): 17761-17767. doi: https://doi.org/10.1021/jp905776g
Joshi HM, Lin YP, Aslam M, Prasad PV, Schultz-Sikma EA, Edelman R, Meade T, Dravid VP. Effects of shape and size of cobalt ferrite nanostructures on their MRI contrast and thermal activation. J Phys Chem C Nanomater Interfaces. 2009;113(41):17761-17767. doi: 10.1021/jp905776g. PMID: 21850276; PMCID: PMC3156095.
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Linking topology of large DNA molecules.

Physica A

Marko JF.
PMID: 20606760
Physica A. 2010 Aug 01;389(15):2997-3001. doi: 10.1016/j.physa.2010.01.003.

Double helix DNA molecules, the carriers of genetic instructions in cells, are strongly affected by their topological properties. Two distinct and biologically important types of linking are associated with double helix DNAs: 'internal' linking of the two strands of...

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Marko JF. Linking topology of large DNA molecules. Physica A. 2010;389(15):2997-3001doi: 10.1016/j.physa.2010.01.003.
Marko, J. F. (2010). Linking topology of large DNA molecules. Physica A, 389(15), 2997-3001. https://doi.org/10.1016/j.physa.2010.01.003
Marko, John F. "Linking topology of large DNA molecules." Physica A vol. 389,15 (2010): 2997-3001. doi: https://doi.org/10.1016/j.physa.2010.01.003
Marko JF. Linking topology of large DNA molecules. Physica A. 2010 Aug 01;389(15):2997-3001. doi: 10.1016/j.physa.2010.01.003. PMID: 20606760; PMCID: PMC2896270.
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Polarization-dependent multipolar plasmon resonances in anisotropic multiscale au particles.

ACS nano

You EA, Zhou W, Suh JY, Huntington MD, Odom TW.
PMID: 22276641
ACS Nano. 2012 Feb 28;6(2):1786-94. doi: 10.1021/nn204845z. Epub 2012 Jan 25.

This paper reports the fabrication and characterization of three-dimensional (3D) multiscale Au particles with different aspect ratios. Increasing the length of the particles resulted in excitation of a longitudinal mode and two different transverse modes having different multipolar orders....

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You EA, Zhou W, Suh JY, et al. Polarization-dependent multipolar plasmon resonances in anisotropic multiscale au particles. ACS Nano. 2012;6(2):1786-94doi: 10.1021/nn204845z.
You, E. A., Zhou, W., Suh, J. Y., Huntington, M. D., & Odom, T. W. (2012). Polarization-dependent multipolar plasmon resonances in anisotropic multiscale au particles. ACS nano, 6(2), 1786-94. https://doi.org/10.1021/nn204845z
You, Eun-Ah, et al. "Polarization-dependent multipolar plasmon resonances in anisotropic multiscale au particles." ACS nano vol. 6,2 (2012): 1786-94. doi: https://doi.org/10.1021/nn204845z
You EA, Zhou W, Suh JY, Huntington MD, Odom TW. Polarization-dependent multipolar plasmon resonances in anisotropic multiscale au particles. ACS Nano. 2012 Feb 28;6(2):1786-94. doi: 10.1021/nn204845z. Epub 2012 Jan 25. PMID: 22276641; PMCID: PMC3289737.
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Epigenetic therapy of hematological malignancies: where are we now?.

Therapeutic advances in hematology

Popovic R, Shah MY, Licht JD.
PMID: 23610616
Ther Adv Hematol. 2013 Apr;4(2):81-91. doi: 10.1177/2040620712466864.

A growing amount of evidence points towards alterations in epigenetic machinery as a leading cause in disease initiation and progression. Like genetic alterations, misregulation of the epigenetic regulators can lead to abnormal gene expression. However, unlike genetic events, the...

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Popovic R, Shah MY, Licht JD. Epigenetic therapy of hematological malignancies: where are we now?. Ther Adv Hematol. 2013;4(2):81-91doi: 10.1177/2040620712466864.
Popovic, R., Shah, M. Y., & Licht, J. D. (2013). Epigenetic therapy of hematological malignancies: where are we now?. Therapeutic advances in hematology, 4(2), 81-91. https://doi.org/10.1177/2040620712466864
Popovic, Relja, et al. "Epigenetic therapy of hematological malignancies: where are we now?." Therapeutic advances in hematology vol. 4,2 (2013): 81-91. doi: https://doi.org/10.1177/2040620712466864
Popovic R, Shah MY, Licht JD. Epigenetic therapy of hematological malignancies: where are we now?. Ther Adv Hematol. 2013 Apr;4(2):81-91. doi: 10.1177/2040620712466864. PMID: 23610616; PMCID: PMC3629753.
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Biophysics of protein-DNA interactions and chromosome organization.

Physica A

Marko JF.
PMID: 25419039
Physica A. 2015 Jan 15;418:126-153. doi: 10.1016/j.physa.2014.07.045.

The function of DNA in cells depends on its interactions with protein molecules, which recognize and act on base sequence patterns along the double helix. These notes aim to introduce basic polymer physics of DNA molecules, biophysics of protein-DNA...

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Marko JF. Biophysics of protein-DNA interactions and chromosome organization. Physica A. 2015;418:126-153doi: 10.1016/j.physa.2014.07.045.
Marko, J. F. (2015). Biophysics of protein-DNA interactions and chromosome organization. Physica A, 418126-153. https://doi.org/10.1016/j.physa.2014.07.045
Marko, John F. "Biophysics of protein-DNA interactions and chromosome organization." Physica A vol. 418 (2015): 126-153. doi: https://doi.org/10.1016/j.physa.2014.07.045
Marko JF. Biophysics of protein-DNA interactions and chromosome organization. Physica A. 2015 Jan 15;418:126-153. doi: 10.1016/j.physa.2014.07.045. PMID: 25419039; PMCID: PMC4235750.
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Multi-scale Plasmonic Nanoparticles and the Inverse Problem.

The journal of physical chemistry letters

Odom TW, You EA, Sweeney CM.
PMID: 23066451
J Phys Chem Lett. 2012 Sep 20;3(18):2611-2616. doi: 10.1021/jz300886z. Epub 2012 Aug 29.

This Perspective describes how multi-scale plasmonic structures with two or more length scales (fine, medium, coarse) provide an experimental route for addressing the inverse problem. Specific near-field and far-field optical properties can be targeted and compiled into a plasmon...

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Odom TW, You EA, Sweeney CM. Multi-scale Plasmonic Nanoparticles and the Inverse Problem. J Phys Chem Lett. 2012;3(18):2611-2616doi: 10.1021/jz300886z.
Odom, T. W., You, E. A., & Sweeney, C. M. (2012). Multi-scale Plasmonic Nanoparticles and the Inverse Problem. The journal of physical chemistry letters, 3(18), 2611-2616. https://doi.org/10.1021/jz300886z
Odom, Teri W, et al. "Multi-scale Plasmonic Nanoparticles and the Inverse Problem." The journal of physical chemistry letters vol. 3,18 (2012): 2611-2616. doi: https://doi.org/10.1021/jz300886z
Odom TW, You EA, Sweeney CM. Multi-scale Plasmonic Nanoparticles and the Inverse Problem. J Phys Chem Lett. 2012 Sep 20;3(18):2611-2616. doi: 10.1021/jz300886z. Epub 2012 Aug 29. PMID: 23066451; PMCID: PMC3467152.
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Making it easier to regulate protein stability.

Chemistry & biology

Schrader EK, Wilmington SR, Matouschek A.
PMID: 20851337
Chem Biol. 2010 Sep 24;17(9):917-8. doi: 10.1016/j.chembiol.2010.09.004.

The ability to induce degradation of a protein of interest is a powerful experimental tool used to ascertain protein function. Iwamoto et al. (2010) describe a method that allows reversible and dose-dependent modulation of the stability of any target...

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Schrader EK, Wilmington SR, Matouschek A. Making it easier to regulate protein stability. Chem Biol. 2010;17(9):917-8doi: 10.1016/j.chembiol.2010.09.004.
Schrader, E. K., Wilmington, S. R., & Matouschek, A. (2010). Making it easier to regulate protein stability. Chemistry & biology, 17(9), 917-8. https://doi.org/10.1016/j.chembiol.2010.09.004
Schrader, Erin K, et al. "Making it easier to regulate protein stability." Chemistry & biology vol. 17,9 (2010): 917-8. doi: https://doi.org/10.1016/j.chembiol.2010.09.004
Schrader EK, Wilmington SR, Matouschek A. Making it easier to regulate protein stability. Chem Biol. 2010 Sep 24;17(9):917-8. doi: 10.1016/j.chembiol.2010.09.004. PMID: 20851337; PMCID: PMC2990474.
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Using DNA to Link Gold Nanoparticles, Polymers and Molecules: a Theoretical Perspective.

The journal of physical chemistry letters

Lee OS, Prytkova TR, Schatz GC.
PMID: 20606716
J Phys Chem Lett. 2010 May 25;1(12):1781-1788. doi: 10.1021/jz100435a.

This Perspective describes theoretical studies aimed at understanding the structural and thermal properties of materials in which DNA is used to link gold nanoparticles, or polymers or organic molecules. Particularly in the case of gold nanoparticles, the materials derived...

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Lee OS, Prytkova TR, Schatz GC. Using DNA to Link Gold Nanoparticles, Polymers and Molecules: a Theoretical Perspective. J Phys Chem Lett. 2010;1(12):1781-1788doi: 10.1021/jz100435a.
Lee, O. S., Prytkova, T. R., & Schatz, G. C. (2010). Using DNA to Link Gold Nanoparticles, Polymers and Molecules: a Theoretical Perspective. The journal of physical chemistry letters, 1(12), 1781-1788. https://doi.org/10.1021/jz100435a
Lee, One-Sun, et al. "Using DNA to Link Gold Nanoparticles, Polymers and Molecules: a Theoretical Perspective." The journal of physical chemistry letters vol. 1,12 (2010): 1781-1788. doi: https://doi.org/10.1021/jz100435a
Lee OS, Prytkova TR, Schatz GC. Using DNA to Link Gold Nanoparticles, Polymers and Molecules: a Theoretical Perspective. J Phys Chem Lett. 2010 May 25;1(12):1781-1788. doi: 10.1021/jz100435a. PMID: 20606716; PMCID: PMC2893743.
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