Recent Publications of Core Bioengineering Faculty

2009	DOI LINK
Ashraf, M. K.; Millare, Brent; Gerasimenko, Alexander A.; Bao, Duoduo; Pandey, Rajeev R.; Lake, Roger K.; Vullev, Valentine "Theoretical Design of Bioinspired Macromolecular Electrets Based on Anthranilamide Derivatives", Biotechnology Progress, (2009).
Bao, D.; Millare, B.; Xia, W.; Steyer, B. G.; Gerasimenko, A. A.; Ferreira, A.; Contreras and Vullev, V. I. "Electrochemical Oxidation of Ferrocene: A Strong Dependence on the Concentration of the Supporting Electrolyte for Nonpolar Solvents," J. Phys. Chem. A (2009), 113; 1259-1267.
Galanakis, P.A., N. Kandias, A.K. Rizos, D. Morikis, E. Krambovitis, G.A. Spyroulias. NMR evidence of charge-dependent interaction between various PND V3 and CCR5 N-terminal peptides (2009). Biopolymers: Peptide Science 92:94-109.
Hu, J.; Xia, B.; Bao, D.; Ferreira, A.; Wan, J.; Jones, G. and Vullev, V. I. "Long-Lived Photogenerated States of a-Oligothiophene-Acridinium Dyads Have Triplet Character," J. Phys. Chem. A 2009, 113, 3096–3107.
Nagamine, K; E. Torikai, K. Shimomura, Y. Ikedo, J.S. Schultz. Molecular radiation biological effect in wet protein and DNA observed in the measurements of labeled electron with muons (2009). Physica B 404: 953–956.
Portney, N.G., G. Destito, M. Manchester, and M. Ozkan. Hybrid assembly of CPMV viruses and surface characteristics of different mutants (2009). Curr Top Microbiol Immunol, Jan; 327: 59-69.
Vasquez, Jacob M; Vu, Andrew; Schultz, Jerome; Vullev, Valentine "Fluorescence Enhancement of Warfarin Induced by Interaction with b-Cyclodextrin", (2009). Biotechnology Progress.
Wan, Jiandi; Thomas, Marlon S.; Guthrie, Sean; Vullev, Valentine I. "Surface-Bound Proteins with Preserved Functionality," Ann. Biomed. Eng. 2009, 37(6): 1190-1205.
Yi, K; M. Mujat, B.H. Park, W. Sun, J.W. Miller, J.M. Seddon, L.H. Young, J.F. de Boer, T.C. Chen. Spectral domain optical coherence tomography for quantitative evaluation of drusen and associated structural changes in non-neovascular age-related macular degeneration (2009). British Journal of Ophthalmology 93(2): 176-181.
Zhou, Jiaxi; Pei Su, Lu Wang, Joanna Chen, Maike Zimmermann, Olga Genbacev, Olubunmi Afonja, Mary C. Horne, Tetsuya Tanaka, Enkui Duan, Susan J. Fisher, J. Liao, Jie Chen, and Fei Wang. mTOR supports long-term self-renewal and suppresses mesoderm and endoderm activities of human embryonic stem cells (2009). PNAS, May; 106: 7840 – 7845.

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2008	DOI LINK
Biglione, N., Rodgers, V.G.J., Peeples, T.L., "Determining Design and Scale-up Parameters for Degradation of Atrazine with Suspended Pseudomonas sp. ADP in Aqueous Bioreactors, Biotechnology Progress, 24(3) 588-592 (2008).
Cheng, A; C. Pasion, X. Shen, and J. Liao. A novel strategy of protein engineering in dissecting SUMO interactions within the JAK/STAT pathway (2008). UC Riverside Undergraduate Research Journal. 2, Article 11.
Cheung, A. S., Yang, J., Kieslich, C. A., Morikis, D. (2008) Computational Prediction of Association Free Energies for the C3d-CR2 Complex and Comparison to Experimental Data, UCR Undergraduate Research Journal 2:13-22.
Dimoka A., Courellis S.H., Marmarelis V.Z., Berger T.W. (2008), “Modeling the Nonlinear Dynamic Interactions of Afferent Pathways in the Dentate Gyrus of the Hippocampus” Ann Biomed Eng, May; 36(5): 852-64.
Dimoka A., Gholmieh G., Courellis S.H., Marmarelis V.Z., Berger T.W., “Modeling the Nonlinear Properties of the in vitro Hippocampal Perforant Path-Dentate System using Multi-Electrode Array Technology,” IEEE Transactions on Biomedical Engineering, 55, 2, 693-702, Feb 2008.
Floudas, C. A., Fung, H. K., Morikis, D., Taylor, M. S., and Zhang, L. (2008) Overcoming the key challenges in de novo protein design: enhancing computational efficiency and incorporating true backbone flexibility, in Mathematical Modeling of Biosystems, Applied Optimization Series, p.p. 133-184, R. P. Mondaini and P. M. Pardalos (Eds.), Springer, New York.
Fung, H. K., Floudas, C. A., Taylor, M. S., Zhang, L., and Morikis, D. (2008) Towards full-sequence de novo protein design with flexible templates for human beta-defensin-2, Biophysical Journal 94:584-599.
Hong, C.; Bao, D.; Thomas, M. S.; Clift, J. M. and Vullev, V. I. (2008) "Print-and- Peel Fabrication of Microelectrodes", Langmuir, 24, 8439-8442.
Huang, X; S. Li, J.S. Schultz, Q. Wang, Q. Lin. A MEMS Affinity Glucose Sensor Using a Biocompatible Glucose-Responsive Polymer (2008). Sensors and Actuators B: Chemical, doi:10.1016/j.snb.2009.04.065.
Huynh, N., Mallik, B., Zhang, L., Martins-Green, M., and Morikis, D. (2008) Computational studies of CXCR1, the receptor of IL-8/CXCL8, using molecular dynamics and electrostatics, Biopolymers 89:52-61. Supplementary material available on-line.
Hong, C.; Bao, D.; Thomas, M. S.; Clift, J. M. and Vullev, V. I. (2008) "Print-and- Peel Fabrication of Microelectrodes", Langmuir, 24, 8439-8442.
Lyubovitsky, J.G., Xiaoman Xu, Tatiana B. Krasieva, Bogi Andersen, Bruce J. Tromberg. Characterization of dermal structural assembly in normal and pathological connective tissues by intrinsic signal multiphoton optical microscopy (2008). Proceedings of the SPIE, Volume 6859, pp. 685902-685902-9.
Madahar, V; V. Nunez, Y. Song, and J. Liao. High-throughput Screening Assay Development for Small Molecule Inhibitor(s) of PIAS1 (2008). UC Riverside Undergraduate Research Journal. 2, Article 13.
Mallik, B., Zhang, L., Koide, S., and Morikis, D. (2008) pH Dependence of Stability of the 10th Human Fibronectin Type III Domain: A Computational Study, Biotechnology Progress 24:48-55. In Special Section: First International Conference on Biomolecular Engineering (ICBE). Supplementary material available on-line.
Millare, B.; Thomas, M.; Ferreira, A.; Xu, H.; Holesinger, M. and Vullev, V. I. (2008) "Dependence of the Quality of Adhesion between Poly(Dimethylsiloxane) and Glass Surfaces on the Conditions of Treatment with Oxygen Plasma", Langmuir, 24; 13218-13224.
Oh, W.Y., S.H. Yun, B.J. Vakoc, G.J. Tearney, M. Shishkov, A.E. Desjardins, J.F. de Boer, B.H. Park, B.E. Bouma. High-speed polarization-sensitive optical frequency domain imaging with frequency multiplexing (2008). Optics Express 2008; 16:1096-103.
Portney, N.G., A.A. Martinez-Morales, and M. Ozkan. Nanoscale memory characterization of virus-templated semiconducting quantum dots (2008). ACS Nano, Feb; 2(2): 191-6.
Schumacher, K.R., A.S. Popel, B. Anvari, W.E. Brownell, and A.A. Spector. Modeling the mechanics of tethers pulled from the cochlear outer hair cell membrane (2008). Journal of Biomechanical Engineering, 130 (3):031007.
Su, H; M. He, H. Li, Q. Liu, J. Wang, Y. Wang, Y. Gao, L. Zhou, J. Liao, J.A. Young, and M.W. Wang. Boc5, a non-peptidic glucagon-like peptide-1 receptor agonist, invokes sustained glycemic control and weight loss in diabetic mice (2008). PLoS ONE. Aug 6; (8):e2892.
Wan, J.; Ferreira, A.; Xia, W.; Chow, C. H.; Takechi, K.; Kamat, P. V.; Jones, G. and Vullev V. I. (2008) “Solvent Dependence of the Charge-Transfer Properties of a Quaterthiophene-Anthraquinone Dyad”, J. Photochem. Photobiol. A, 197, 364-374.
Wang, Y., and Rodgers, V.G.J., “Free-Solvent Model Shows Osmotic Pressure is the Dominant Factor in Limiting Flux During Protein Ultrafiltration”, Journal of Membrane Science, 320 (2008) 335-343.
Yaseen, M.A., J. Yu, M.S. Wong, and B. Anvari. In-vivo fluorescence imaging of mammalian organs using charge-assembled mesocapsule constructs containing indocyanine green (2008). Optics Express, 16: 20577-20587.
Zhang, L., Mallik, B., and Morikis, D. (2008) The NMR structure of a cyclic C5aR antagonist, Biopolymers: Peptide Science 90: 803-815.

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2007

Anvari, B; R. Zhang, F. Qian, F. Rajagopalan, F.A. Pereira, and W.E. Brownell. Effects of prestin on membrane mechanics and electromechanics (2007). Conf Proc IEEE Eng Med Biol Soc, Jan; 5384-6.

Cense, B; M. Mujat, T.C. Chen, B.H. Park, J.F. de Boer. Polarization-sensitive spectral-domain optical coherence tomography using a single line scan camera (2007). Optics Express 15(5): 2421-31.

Chae, K., Zhang, K., Zhang, L., Morikis, D., Kim, S., Mollet, J. C., de la Rosa, N., Tan, K., and Lord E. M. (2007) A relationship between structural features and lily pollen tube adhesion activity of SCA (stigma/style cysteine-rich adhesin) isoforms, Journal of Biological Chemistry 282, 33845-33858.

Chen, D., Liao, J., Li, N., Zhou, C., Liu, Q., Wang, G., Zhang, R., Zhang, S., Lin, L., Chen, K.,Xie, X., Nan, F., Young, A. A., and Wang, M-W (2007) A nonpeptidic agonist of glucagon-like peptide 1 receptors with efficacy in diabetic db/db mice, PNAS, 104: 3, 943–948.

Gao, D., Chen, W., Mulchandani, A. and Schultz, J. S. (2007) Detection of Tumor Markers Based on Extinction Spectra of Visible Light Passing through Gold Nanoholes, Applied Physics Letters (90:073901).

Jones, G., II; Yan, D.; Hu, J.; Wan, J.; Xia, B. and Vullev, V. I. (2007) Photoinduced Electron Transfer in Arylacridinium Conjugates in a Solid Glass Matrix, J. Phys. Chem. B, 111, 6921-6929.

Jpn, K.K., Nagamine, K. Shimomura, H. Miyadera, Y.J. Ki, R.H. Scheicher, T. P. Das and J.S. Schultz. Hemoglobin Magnetism in Aqueous Solution Probed by Muon Spin Relaxation and Future Applications to Brain Research.Proc (2007). Acad., Ser. B83 120-126.

Kim, K.H., B.H. Park, G.N. Maguluri, T. Lee, F. Rogomentich, M. Bancu, B.E. Bouma, J.F. de Boer, J.J. Bernstein. Two-axis magnetically-driven MEMS scanning catheter for endoscopic high-speed optical coherence tomography (2007). Optics Express 2007; 15:18130-40.

Liao,J. (2007) Protein and Cellular Engineering with Unnatural Amino Acids, Biotechnol Prog. 23(1):28-31.

Lyubovitsky, J.G., Xiaoman Xu, Tatiana B. Krasieva, Bogi Andersen, Bruce J. Tromberg. In situ multi-photon optical tomography of hair follicles in mice (2007). Biomed. Opt., Vol. 12, 044003.

Maguluri, G.N., M. Mujat, B.H. Park, K.H. Kim, W. Sun, N.V. Iftimia, R.D. Ferguson, D.X. Hammer, T.C. Chen, J.F. de Boer. Three dimensional tracking for volumetric spectral-domain optical coherence tomography (2007). Optics Express 2007; 15:16808-17.

Mallik, B., Zhang, L., Koide, S., and Morikis, D. (2008) pH-dependence of stability of the tenth human fibronectin type III domain: a computational study, Biotechnology Progress 24, 48-55.

Morikis, D., Rizos, A. K., Spandidos, D., and Krambovitis, E. (2007) Electrostatic modeling of peptides derived from the V3-loop of HIV-1 gp120: implications in the interaction with chemokine receptor CCR5, International Journal of Molecular Medicine 19, 343-352.

Mujat, M; B.H. Park, B. Cense, T.C. Chen, J.F. de Boer. Autocalibration of spectral-domain optical coherence tomography spectrometers for in vivo quantitative retinal nerve fiber layer birefringence determination (2007). Journal of Biomedical Optics 2007; 12:041205-1-6.

Nadkarni, S.K., M.C. Pierce, B.H. Park, J.F. de Boer, P. Whittaker, B.E. Bouma, J.E. Bressner, E. Halpern, S.L. House, G.J. Tearney. Measurement of Collagen and Smooth Muscle Cell Content in Atherosclerotic Plaques Using Polarization-Sensitive Optical Coherence Tomography (2007). Journal of the American College of Cardiology 2007; 49:1474-1481.

Nagamine, K., Shimomura, K., Miyadera, H., Ki,,Y.-J., Scheicher, R.H., Das,,T. P. and Schultz, J.S. (2007) Hemoglobin Magnetism in Aqueous Solution Probed by Muon Spin Relaxation and Future Applications to Brain Research, Proc. Jpn. Acad., Ser. B83 120-126.

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Ng, C. F., Schafer, F.Q., Buettner, G.R., Rodgers, V.G.J., “Cellular hydrogen peroxide removal shows dependency on effective GPx activity: Mathematical insight into observed in-vivo behavior”, Free Radical Research, 41(11) 1201-1211 (2007).

Park, B.H., J.F. de Boer. Polarization-Sensitive Optical Coherence Tomography (2007). 'Optical Coherence Tomography: Technology and Applications’ W. Drexler, J.G. Fujimoto (Eds.), Springer. Chapter 22, pp 653-696.

Raub, C. B., Suresh, V., Krasieva, T., Lyubovitsky, J., Mih, J. D., Putnam, A. J., Tromberg, B. J., George, S. C. (2007) Non-invasive assessment of collagen hydrogel microstructure and mechanics using multiphoton microscopy, Biophys. J. 92, 2212-2222.

Tamamis, P., Skourtis, S. S., Morikis, D., Lambris, J. D., and Archontis, G. (2007) Conformational Analysis of Compstatin Analogues with Molecular Dynamics Simulations in Explicit Water, Journal of Molecular Graphics and Modelling, 26:571-580.

Tilakaratne, H. K., Andracki, M. E., Yang, B. Hunter, S. K., and Rodgers, V.G.J., (2007) Can Myoglobin-Expression in Pancreatic Beta Cells Improve Insulin Secretion Under Hypoxia? An Exploratory Study with Transgenic Porcine Islet, Artificial Organs, 31(7) 521-531 .

Tilakaratne, H. K., Hunter, S. K., Andracki, M. E., Benda, J. A., and Rodgers, V.G.J., (2007) Characterizing Short-Term Release and Neovascularisation Potential of Multi-Protein Growth Supplement from Alginate-Hollow Fiber Devices, Biomaterial, 28(1), 89-98 .

Wenzel, G. I., Anvari, B., Mazhar, A., Pikkula, B. and Oghalai, J. S. (2007) "Laser-induced collagen remodeling and deposition within the basilar membrane of the mouse cochlea," Journal of Biomedical Optics, 12(2):021007.

Yasseen, M.A., J. Yu, M.S. Wong, and B. Anvari. Laser-induced heating of dextran-coated mesocapsules containing indocyanine green (2007). Biotechnology Progress, 23: 1431-1440.

Yasseen, M.A., J. Yu, M.S. Wong, and B. Anvari. Stability assessment of indocyanine green within dextran-coated mesocapsules by absorption spectroscopy (2007). Journal of Biomedical Optics, 12(6):064031.

Yu, J.,Yaseen, M. A., Anvari, B. and Wong, M. S. (2007) "Synthesis of Near-Infrared-Absorbing Nanoparticle-Assembled Capsules," Chemistry of Materials, 19: 1277-1284.

Zhang, R; F. Qian, L. Rajagoplan, F.A. Pereira, W.E. Brownell, and B. Anvari. Prestin modulates mechanics and electromechanical force of the plasma membrane (2007). Biophysical Journal, 10.1529/biophysj.107.107573.

Zhang, L., Mallik, B., and Morikis, D. (2007) Immunophysical exploration of C3d-CR2(CCP1-2) association using molecular dynamics and electrostatics, Journal of Molecular Biology 369:567-583.

Zhang, L. and Morikis, D. (2007) Solution structure of a bent alpha-helix, Biochemistry 46:12959-12967.

Zhang, R., Yan, P.K., Zhou, C.H., Liao, J., Wang, M.W.(2007) “Development of a homogeneous calcium mobilization assay for high throughput screening of mas-related gene receptor agonists” Acta Pharmacol Sin, 28(1):125-31.

Zhang, R., Qian, F., Rajagoplan, L., Pereira, F. A., Brownell, W. E., and Anvari, B. (2007) "Prestin modulates mechanics and electromechanical force of the plasma membrane" Biophysical Journal.

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2006

Buettner G.R., Ng C. F., Rodgers V.G.J., Schafer F.Q., (2006) A New Paradigm: Manganese Superoxide Dismutase Influences the Production of H2O2 in Cells and Thereby their Biological State, Free Radical Biology and Medicine, 41(8) 1338-1350 .

Ermilov, S., Murdock, D. R., Qian, F., Brownell, W. E., and Anvari, B. (2006) Studies of plasma membrane mechanics and plasma membrane-cytoskeleton interactions using optical tweezers and fluorescence imaging, Journal of Biomechanics, doi:10.1016/j.biomech.2005.12.006.

Gao, D., McBean, N., Schultz, J. S., Yan,Y., Mulchandani, A., Chen, W. (2006) Fabrication of Antibody Arrays Using Thermally Responsive Elastin Fusion Proteins J. Am. Chem. Soc., 128 (3), 676 -677.

Gliko, O., Reddy, G. D., Anvari, B., Brownell, W. E. and Saggau, P., (2006) Standing wave total internal reflection fluorescence microscopy to measure the size of nanostructures in living cells, Journal of Biomedical Optics, Journal of Biomedical Optics, 11(6), 064013.

Mallik, B. and Morikis, D. (2006) Applications of molecular dynamics simulations in immunology: a useful computational method in aiding drug and vaccine design, Current Proteomics 3:259-270.

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Morikis, D., Mallik, B., and Zhang, L. (2006) Biophysical and bioengineering methods for the study of the complement system at atomic resolution. WSEAS Transactions on Biology and Biomedicine 6:408-413.

Morikis, D., and Zhang, L. (2006) An immunophysical study of the complement system: examples for the pH dependence of protein binding and stability, Journal of Non-Crystalline Solids 352:4445-4450.

Nagamine, K., Shimomura, S., Imai, K., Schultz, J.S. (2006) Probing magnetism in human blood by muon spin relaxation. Physica B, 374-375: 444-447.

Pavlou, P.A. and Dimoka, A. (2006) The Nature and Role of Feedback Text Comments in Online Marketplaces: Implications for Trust Building, Price Premiums, and Seller Differentiation, Information Systems Research, (17:4).

Rizos, A. K., Tsikalas, I., Morikis, D., Galanakis, P., Spyroulias, G. A., and Krambovitis, E. (2006) Characterization of the interaction between peptides derived from the gp120/V3 domain of HIV-1 and the amino terminal of the chemokine receptor CCR5 by NMR spectroscopy and light scattering, Journal of Non-Crystalline Solids 352:4451-4458.

Rodgers, V.G.J., and Wang, Y., (2006) Ultrafiltration and Nanofiltration Membranes, for the Encyclopedia of Surface and Colloid Science, Second Edition; Taylor & Francis: New York, 8, 6394 – 6415.

Schultz, J.S. (2006) Inside the Cell – A New Paradigm for Unit Operations and Unit Processes? Chemical Engineering Education. 40(2): 126-139.

Schultz, J.S. (2006) Optically-based Affinity Biosensors for Glucose. In Topics in Fluorescence Spectroscopy, Volume 11, Glucose Sensing. Editors C.D. Geddes and J.R. Lakowicz., pp 283-310.

Vullev, V. I.; Wan, J.; Heinrich, V.; Landsman, P.; Bower, P. E.; Xia, B.; Millare, B. and Jones, G., II (2006) Nonlithographic Fabrication of Microfluidic Devices," J. Am. Chem. Soc. , 128, 16062-16072. Supplemental material.

Wu, J. and Morikis, D. (2006) Molecular thermodynamics for charged biomacromolecules, Fluid Phase Equilibria 241:317-333. Special Festschrift issue in honor of Professor John M. Prausnitz.

Zhang, L. and Morikis D. (2006) Immunophysical properties and prediction of activities for vaccinia virus complement control protein and smallpox inhibitor of complement enzymes using molecular dynamics and electrostatics, Biophysical Journal 90:3106-3119. Supplementary material.

Zhao, A. and Rodgers, V.G.J., “Using TEM to Couple Transient Protein Distribution and Release for PLGA Microparticles for Potential Use as Vaccine Delivery Vehicles”, Journal of Controlled Release, 113(1) 15-22 (2006).

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2005

Arya, M., Romo, G. M., Cruz, M. A., Lopez, Jose A. and Anvari, B.(2005) “Dynamic force spectroscopy glycoprotein Ib-IX and von Willebrand factor,” Biophysical Journal, 88: 4391-4401.

Ermilov, S., Murdock, D. R., El-Daye, D., Brownell, W. E., and Anvari, B. (2005) “Effects of salicylate on plasma membrane mechanics,” Journal of Neurophysiology, 94: 2105-2110.

Liao J, Tao J, Lin G, and Liu D. (2005). Chemistry and Biology of Sphingolipids. Tetrahedron. 61(20):4715-4733.

Mallik, B., Katragadda, M., Spruce, L. A., Carafides, C., Tsokos, C. G, Morikis, D. , and Lambris, J. D. (2005) "Design and NMR characterization of active analogs of compstatin containing non-natural amino acids", Journal of Medicinal Chemistry 48, 274-286.

Mallik, B. and Morikis, D. (2005) "Development of a quasi-dynamic pharmacophore model for anti-complement peptide analogues", Journal of the American Chemical Society 127, 10967-10976. Supplementary material

Mayers, B. T.; Vezenov, D. V.; Vullev, V. I.; Whitesides, G. M. "Arrays and Cascades of Fluorescent Liquid-Liquid Waveguides: Broadband Light Sources for Spectroscopy in Microchannels," Anal. Chem. 2005, 77, 1310-1316.

Morikis, D., and Lambris, J. D. (Eds.) (2005) Structural Biology of the Complement System, CRC Press/Taylor & Francis Group, Boca Raton, FL (ISBN 0-8247-2540-9). 370 pages. For Book Reviews see: Gordon, D. (2006) Immunology and Cell Biology 84:486; Tsokos, G. (2005) Clinical Immunology 116:306; Martinez, O. P. (2006) World Allergy Organization: http://www.worldallergy.org/reviews/bookreviews.shtml

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Morikis D., and Lambris, J. D. (2005), The building blocks of the complement system, in Structural Biology of the Complement System, p.p. 1-18, D. Morikis and J. D. Lambris (Eds.), CRC Press/Taylor & Francis Group, Boca Raton, FL.

Morikis D., Holland, M. C. H., and Lambris, J. D. (2005) Structure of the anaphylatoxins C3a and C5a, in Structural Biology of the Complement System, p.p. 161-177, D. Morikis and J. D. Lambris (Eds.), CRC Press/Taylor & Francis Group, Boca Raton, FL.

Morikis D., and Lambris, J. D. (2005) Structure, dynamics, activity, and function of compstatin and design of more potent analogs, in Structural Biology of the Complement System, p.p. 317-340, D. Morikis and J. D. Lambris (Eds.), CRC Press/Taylor & Francis Group, Boca Raton, FL.

Morikis, D., Floudas, C. A., and Lambris, J. D. (2005) Structure-based integrative computational and experimental approach for the optimization of drug design, in ICCS 2005, Lecture Notes in Computer Science: Computational Science, p.p. 680-688, V. S. Sunderam, G. D. van Albada, P. M. A. Sloot, and J. J. Dongarra (Eds.), Springer-Verlag, Berlin-Heidelberg.

Murdock, D. R., Ermilov, S., Spector, A. A., Popel, A. S., Brownell, W. E. and Anvari, B. (2005) “Effects of chlorpromazine on mechanical properties of outer hair cell plasma membrane,” Biophysical Journal, 89: 4090-4095.

Sfyroera, G., Katragadda, M., Morikis, D., Isaacs, S. N., and Lambris, J. D. (2005) Electrostatic modeling predicts the activities of orthopoxvirus complement control proteins Journal of Immunology 174, 2143-2151.

Vullev, V. I. "Modulation of Dissociation Kinetics by External Force: Examination of the Bell Model," J. Biol. Sci. 2005, 5, 744-758.

Vullev, V. I.; Jiang, H.; and Jones II, G. "Excimer Sensing," In Advanced Concepts in Fluorescence Spectroscopy: Part B: Macromolecular Sensing (Topics in Fluorescence Spectroscopy, Vol. 10), Geddes, C. D. and Lakowicz, J. R. Eds.; Springer Science + Business Media, Inc.; 2005, P211-240

Vullev, V. I.; Jones, G., II "Nanosecond Laser Flash Photolysis: Dealing with Dynamic-Range and Response-Time Limitations of the Detection System," J. Appl. Sci. 2005, 5, 517.

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2004

Anvari, B., Torres, J. H. and McIntyre, B. W.(2004) “Regulation of pseudopodia localization in lymphocytes through application of mechanical forces by optical tweezers,” Journal of Biomedical Optics, 9: 865-872.

Floudas, C. A., Klepeis, J. L., Lambris, J. D., and Morikis, D. (2004) De novo protein design: an interplay of global optimization, mixed-integer optimization and experiments, in FOCAPD 2004, Sixth International Conference on Foundations of Computer-Aided Process Design, Discovery through Product and Process Design, pp. 133-146, C. A. Floudas and R. Agrawal (Eds.), CACHE Corporation, Austin TX. Proceedings of the Conference held at Princeton University, Princeton, NJ, 7/11-16/2004.

Holland, M. C. H., Morikis, D., and Lambris, J. D. (2004) Synthetic small molecule complement inhibitors, Current Opinion in Investigational Drugs 5:1164-1173.

Katragadda, M., Morikis, D. , and Lambris, J. D. (2004) Thermodynamics studies on the interaction of the third complement component and its inhibitor, compstatin Journal of Biological Chemistry 279, 54987-54995.

Kim, J. H., Morikis, D. , and Ozkan, M. (2004) Adaptation of inroganic quantum dots for stable molecular beacons Sensors and Actuators B: Chemical 102 , 315-319.

Kim, J. H., Stephens, J. P., Morikis, D. , and Ozkan, M. (2004) Hybrid inorganic-organic molecular beacons Sensor Letters 2 , 85-90.

Mastellos, D., Morikis, D., Strey, C., Holland, M. C., and Lambris, J. D. (2004) From atoms to systems: a cross-disciplinary approach to complement mediated functions, Molecular Immunology 41:153-164.

Morikis, D. and Lambris, J. D. (2004) The electrostatic nature of C3d-complement receptor 2 association Journal of Immunology 172 , 7537-7547. Supplementary material

Morikis, D. and Lambris J. D. (2004) Physical methods for structure, dynamics, and binding in immunological research, Trends in Immunology 25:700-707. Special anniversary issue for the 25th year birthday of Immunology Today/Trends in Immunology.

Morikis, D., Soulika, A. M., Mallik, B., Klepeis, J. L., Floudas, C. A., and Lambris, J. D. (2004) Improvement of the anti-C3 activity of compstatin using rational and combinatorial approaches, Biochemical Society Transactions 32:28-32.

Klepeis, J. L., Floudas, C. A., Morikis, D. , Tsokos, C. G., and Lambris, J. D. (2004) Design of peptide analogues with improved activity using a novel de novo protein design approach Industrial & Engineering Chemistry Research 43 , 3817-3826.

Sanna MG, Liao J, Jo E, Alfonso C, Ahn MY, Peterson MS, Webb B, Lefebvre S, Chun J, Gray N, and Rosen H. Sphingosine 1-phosphate (S1P) receptor subtypes S1P1 and S1P3, respectively, regulate lymphocyte recirculation and heart rate (2004). J Biol Chem. 279(14): 13839-48.

Simpson, K. H., Bowden, G., Arya, M., Höök, M. and Anvari, B. (2004) “Adherence of Staphylococcus aureus fibronectin binding protein A mutants: an investigation using optical tweezers,” Biomolecular Engineering, 21: 105-111.

Ermilov, S., and Anvari, B. (2004) “Dynamic measurements of transverse optical trapping force in biological applications,” Annals of Biomedical Engineering, 32: 1016-1026, 2004. F. Qian, S. Ermilov, D. Murdock, W. E. Brownell, and B. Anvari; “Combining optical tweezers and patch clamp techniques for studies of cell membrane electromechanics,” Review of Scientific Instruments, 75: 2937-2942.

Wenzel, G. I., Pikkula, B., Choi, C. H., Anvari, B. and Oghalai, J.(2004) “Laser irradiation of the guinea pig cochlea basilar membrane,” Lasers in Surgery and Medicine, 35: 174-180.

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