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Yayın Dissipative dynamics and the statistics of energy states of a Hookean model for protein folding(Kluwer Academic Publishers-Plenum Publishers, 2000-07) Tüzel, Erkan; Erzan, AyşeA generic model of a random polypeptide chain, with discrete torsional degrees of freedom and Hookean spring connecting pails or hydrophobic residues, reproduces the energy probability distribution of real proteins over a very large range of energies. We show that this system with harmonic interactions, under dissipative dynamics driven by random noise, leads to a distribution of energy states obeying a modified one-dimensional Ornstein-Uhlenbeck process and giving rise Lo the so-called Wigner distribution. A tunably fine- or coarse-grained sampling of the energy landscape yields a family of distributions for the energies and energy spacings.Yayın The conformal Penrose limit: back to square one(IOP Publishing LTD, 2008-08-21) Güven, RahmiWe show that the conformal Penrose limit is an ordinary plane wave limit in a higher dimensional framework which resolves the spacetime singularity. The higher dimensional framework is provided by Ricci-flat manifolds which are of the form M-D = M-d x B, where Md is an Einstein spacetime that has a negative cosmological constant and admits a spacelike conformal Killing vector, and B is a complete Sasaki-Einstein space with constant sectional curvature. We define the Kaluza-Klein metric of M-D through the conformal Killing potential of M-d and prove that M-d has a conformal Penrose limit if and only if M-D has an ordinary plane wave limit. Further properties of the limit are discussed.Yayın T-P phase diagram of ammonia solid phases I, II and III(Elsevier Science, 2002-01-02) Enginer, Yücel; Salihoğlu, Selami; Yurtseven, Hasan HamitIn this study, using the mean field theory, we obtain temperature versus pressure phase diagram for the liquid and solid phases I, II, and III of ammonia. We fit, our phase line equations to the experimentally observed data. There exists good agreement between the theoretical and experimental phase lines.Yayın A photon transmission study for film formation from poly(vinyl acetate) latex particles with different molecular weights(John Wiley & Sons Inc, 2007-10-15) Arda, Ertan; Kara, Selim; Pekcan, Mehmet ÖnderThe photon transmission technique was used to monitor the temperature evolution of film formation from poly(vinyl acetate) (PVAc) latex particles with two different molecular weights. Two sets of latex films were prepared below the glass transition temperature (T-g) of PVAc, which are named as low (LM) and high molecular weight (HM) films. These films were annealed at elevated temperatures above the Tg of PVAc for various time intervals. It is observed that transmitted photon intensity (I-tr) from these films increased as the annealing temperature was increased. Onset temperatures (T-H) at given times (tau H) for starting the optical clarity of LM and HM films were measured and used to calculate the healing activation energies (Delta H) for the PVAc minor chains, and found to be as 28.1 kcal/mol and 27.7 kcal/mol, respectively. The increase in the transmitted photon intensity, Itr above TH was attributed to the increase in the number of disappeared interfaces between the deformed latex particles. Prager-Tirrell (PT) model was employed to interpret the increase in the crossing density of chains at the junction surfaces. The interdiffusion (backbone) activation energies (Delta E) were measured and found to be 177.5 kcal/mol and 210.7 kcal/mol for a diffusing PVAc chains across the junction surface of LM and HM latex films, respectively.Yayın Investigating the thermally transferred optically stimulated luminescence source trap in fired geological quartz(Pergamon-Elsevier Science Ltd, 2014-03) Koul, Dileep K.; Patil, Pravinkumar G.; Oniya, Ebenezer O.; Polymeris, George S.The pre-dosed thermoluminescence (TL) emission of quartz has been found to be useful in retrospective dosimetry and archaeometry. Though the pre-dosed optically stimulated luminescence (OSL) and emissions have been reported to be similar, the former has been found to be un-reliable for the equivalent dose estimation. As this measurement protocol involves thermal heating at around 400 degrees C, the work reported in this paper investigated the influence of this heating on the OSL using fired specimens from various regions. The results suggested that the discrepancy in the behaviour of two emissions is caused by the presence of the thermally transferred optically stimulated luminescence (TT-OSL) induced by thermal-activation involved in the pre-dose treatment. This transferred signal was observed to be very significant in the case of samples containing a prominent higher-temperature TL peak at similar to 375 degrees C. The characterization of this signal based on (i) the nature of the glow curves, (ii) thermal-annealing of the OSL trap, (iii) observation of the TT-OSL, (iv) bleaching of the source trap and (v) the correlation between TL and OSL seems to suggest that the trap corresponding to this TL peak is the source trap in the TT-OSL emission mechanism.Yayın Cation effect on gel-sol transition of kappa carrageenan(Springer, 2008-04) Pekcan, Mehmet Önder; Tarı İlgin, ÖzlemThe steady state fluorescence (SSF) technique was employed to study gel - sol transitions of kappa carrageenan in NaCl, KCl and CaCl2 solutions. Pyranine was used as a fluorescence probe for monitoring these transitions. Scattered light, I-sc and fluorescence intensity, I was monitored against temperature to determine the gel - sol (T-gs) transition temperatures and exponents. It was observed that T-gs values are strongly correlated to the NaCl, KCl and CaCl2 contents. The weight average degree of polymerization, DPw and gel fraction G, exponents (gamma and beta) were measured and found to be in accord with the classical Flory-Stockmayer Model.Yayın The correlation of fast OSL component with the TL peak at 325 degrees C in quartz of various origins(Elsevier Science BV, 2010-02) Kitis, George; Güneç Kıyak, Nafiye; Polymeris, George S.; Tsirliganis, Nestor C.The fast component of the optically stimulated luminescence (OSL) signal in quartz is the basic tool for the optical dating. Its relation with the thermoluminescence (TL) glow-peak at about 325 degrees C is well established for naturally irradiated quartz. This relationship is also an important part of a general model for quartz on which many theoretical simulations of various OSL experimental results have been based. In the present work this relationship is systematically investigated in nine quartz samples of different origin. The linearly modulated OSL (LM-OSL) curves of all quartz samples for stimulation time less than 50s consists of two components discriminated easily by a computerized curve deconvolution (CCD) analysis. By comparing the un-bleached to the respective bleached TL glow-curve, it is found that the system of these two fast OSL components is directly related with only a small portion of the electron traps responsible for the TL glow-peaks in the temperature region 200-400 degrees C. By increasing the stimulation times, besides the two fast components, the medium and the slow components are also obtained. The medium and slow components are clearly related with the main body of the electron traps responsible for TL glow-peaks in the same temperature region 200-400 degrees C. Despite their different origin all quartz samples show an appreciable homogeneity concerning the number and time position of the individual components, whereas, the relative TL/OSL intensities vary strongly from sample to sample with the integrated TL intensity being generally much less than the integrated OSL intensity.Yayın Nonreciprocal switching of VO2 thin films on microstructured surfaces(Optical Soc Amer, 2010-05-15) Karakurt, İsmail; Adams, Charles H; Leiderer, Paul; Boneberg, Johannes; Haglund, Richard F.We demonstrate that the combination of near-field focusing and a switchable oxide layer permits construction of a modulator with different optical switching thresholds in two opposing directions. For that purpose VO2 layers are deposited onto spherical micrometer-sized particles. The phase transition in VO2 is induced by a nanosecond-pulsed Nd:YAG laser from two different directions. The measured thresholds differ by a factor of 2.4, consistent with calculated differences in the intensities in the two directions.Yayın Swelling of iota-carrageenan gels prepared with various CaCl2 content: A fluorescence study(European Polymer Federation, 2008-01-05) Tarı İlgin, Özlem; Pekcan, Mehmet ÖnderIota carrageenan gels prepared with various CaCl2 content were completely dried and then swelled in water vapor. Steady-state fluorescence ( SSF) technique was used to monitor the swelling process of each iota carrageenan gels at various temperatures. Pyranine was used as a fluorescence probe. Apparent fluorescence intensity, I increased as swelling time increased for all gel samples. The increase in I was modelled using Li-Tanaka equation from which the swelling time constants, tau(1) and cooperative diffusion coefficients, D-c were determined. It was observed that D-c increased as the swelling temperature was increased. On the other hand at each temperature, it was seen that D-c decreased as CaCl2 content was increased. Activation energies for swelling were obtained and found to be 60.5, 61.0, 61.5 and 62.8 kJmol(-1) for the gels prepared with increasing amount of CaCl2 content.Yayın Small molecule desorption from a swelling polymeric glass in polymer solution: Energy transfer method(Elsevier Science Sa, 2005-07-15) Uğur, Şaziye; Pekcan, Mehmet ÖnderDirect energy transfer (DET) method conjunction with fast transient fluorescence (FTRF) technique were used to study small molecule desorption from a swelling poly(methyl methacrylate) (PMMA) glass in polymer solution, which is consist of naphthalene (N)-labeled PMMA chains in chlorofrom-heptane mixture. Desorption coefficients, D-d of pyrene (P) desorbing from the swelling PMMA glass prior to dissolution were measured and found to be 8.3 x 10(-8) and 1.3 x 10(-5) cm(2) s(-1) in short and long time regions, respectively.
