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Permanent URI for this collectionhttps://hdl.handle.net/20.500.14288/6
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Publication Open Access An information theoretical analysis of broadcast networks and channel routing for FRET-based nanoscale communications(Institute of Electrical and Electronics Engineers (IEEE), 2012) Kuşcu, Murat; Malak, Derya; Akan, Özgür Barış; Faculty Member; College of EngineeringNanoscale communication based on Forster Resonance Energy Transfer (FRET) enables nanomachines to communicate with each other using the excited state of the fluorescent molecules as the information conveyer. In this study, FRET-based nanoscale communication is further extended to realize FRET-based nanoscale broadcast communication with one transmitter and many receiver nanomachines, and the performance of the broadcast channel is analyzed information theoretically. Furthermore, an electrically controllable routing mechanism is proposed exploiting the Quantum Confined Stark Effect (QCSE) observed in quantum dots. It is shown that by appropriately selecting the employed molecules on the communicating nanomachines, it is possible to control the route of the information flow by externally applying electric field in FRET-based nanonetworks.Publication Open Access Ultraslow optical modes in Bose-Einstein condensates(Society of Photo-optical Instrumentation Engineers (SPIE), 2007) Tarhan, Devrim; Postacıoğlu, Nazmi; Department of Physics; Müstecaplıoğlu, Özgür Esat; Faculty Member; Department of Physics; College of Sciences; 1674Light can be slowed down to ultraslow speeds via electromagnetically induced transparency in atomic Bose-Einstein condensates. This is thought to be useful for storage of quantum information for weak probe pulses. We investigate the effects of inhomogeneous density profile of-the condensate on propagation of such ultraslow pulses. We find that spatial density of an atomic condensate leads to a graded refractive index profile, for an off-resonant probe pulse when condensate parameters are suitably chosen. Within the window of negligible absorption, conditions for degenerate multiple waveguide modes are determined. Both analytical and numerical studies are presented to reveal the effects of experimentally controllable parameters, such as temperature and interatomic interaction strength on the number of modes. Group velocity dispersion and modal dispersion are discussed. The effect of waveguide dispersion, in addition to usual material dispersion, on ultraslow pulses is pointed out.Publication Open Access Database for CO2 separation performances of MOFs based on computational materials screening(American Chemical Society (ACS), 2018) Eruçar, İlknur; Department of Chemical and Biological Engineering; Altıntaş, Çiğdem; Avcı, Gökay; Harman, Hilal Dağlar; Azar, Ayda Nemati Vesali; Velioğlu, Sadiye; Keskin, Seda; Researcher; Post Doctorate Student; Department of Chemical and Biological Engineering; College of Engineering; N/A; N/A; N/A; N/A; N/A; 40548Metal-organic frameworks (MOFs) are potential adsorbents for CO2 capture. Because thousands of MOFs exist, computational studies become very useful in identifying the top performing materials for target applications in a time-effective manner. In this study, molecular simulations were performed to screen the MOF database to identify the best materials for CO2 separation from flue gas (CO2/N-2) and landfill gas (CO2/CH4) under realistic operating conditions. We validated the accuracy of our computational approach by comparing the simulation results for the CO2 uptakes, CO2/N-2 and CO2/CH4 selectivities of various types of MOFs with the available experimental data. Binary CO2/N-2 and CO2/CH4 mixture adsorption data were then calculated for the entire MOF database. These data were then used to predict selectivity, working capacity, regenerability, and separation potential of MOFs. The top performing MOF adsorbents that can separate CO2/N-2 and CO2/CH4 with high performance were identified. Molecular simulations for the adsorption of a ternary CO2/N-2/CH4 mixture were performed for these top materials to provide a more realistic performance assessment of MOF adsorbents. The structure-performance analysis showed that MOFs with Delta Q(st)(0) > 30 kJ/mol, 3.8 angstrom < pore-limiting diameter < 5 angstrom, 5 angstrom < largest cavity diameter < 7.5 angstrom, 0.5 < phi < 0.75, surface area < 1000 m(2)/g, and rho > 1 g/cm(3) are the best candidates for selective separation of CO2 from flue gas and landfill gas. This information will be very useful to design novel MOFs exhibiting high CO2 separation potentials. Finally, an online, freely accessible database https://cosmoserc.ku.edu.tr was established, for the first time in the literature, which reports all of the computed adsorbent metrics of 3816 MOFs for CO2/N-2, CO2/CH4, and CO2/N-2/CH4 separations in addition to various structural properties of MOFs.Publication Open Access Hydrothermal-electrochemical growth of heterogeneous zno: co films(SpringerOpen, 2017) Department of Chemistry; Akkaya, Ceren Yılmaz; Ünal, Uğur; PhD Student; Faculty Member; Department of Chemistry; Koç University Surface Science and Technology Center (KUYTAM) / Koç Üniversitesi Yüzey Teknolojileri Araştırmaları Merkezi (KUYTAM); College of Sciences; Graduate School of Sciences and EngineeringBACKGROUND: Central venous cannulation is a necessary invasive procedure for fluid management, haemodynamic monitoring and vasoactive drug therapy. The right internal jugular vein (RIJV) is the preferred site. Enlargement of the jugular vein area facilitates catheterization and reduces complication rates. Common methods to enlarge the RIJV cross-sectional area are the Trendelenburg position and the Valsalva maneuver. OBJECTIVE: Compare the Trendelenburg position with upper-extremity venous return blockage using the tourniquet technique. DESIGN: Prospective clinical study. SETTING: University hospital. SUBJECTS AND METHODS: Healthy adult volunteers (American Society of Anesthesiologists class I) aged 18-45 years were included in the study. The first measurement was made when the volunteers were in the supine position. The RIJV diameter and cross-sectional area were measured from the apex of the triangle formed by the clavicle and the two ends of the sternocleidomastoid muscle, which is used for the conventional approach. The second measurement was performed in a 20 degrees Trendelenburg position. After the drainage of the veins using an Esbach bandage both arms were cuffed. The third measurement was made when tourniquets were inflated. MAIN OUTCOME MEASURE(S): Hemodynamic measurements and RIJV dimensions. RESULTS: In 65 volunteers the diameter and cross-sectional area of the RIJV were significantly widened in both Trendelenburg and tourniquet measurements compared with the supine position (P<.001 for both measures). Measurements using the upper extremity tourniquet were significantly larger than Trendelenburg measurements (P=.002 and <.001 for cross-sectional area and diameter, respectively). CONCLUSION: Channelling of the upper-extremity venous return to the jugular vein was significantly superior when compared with the Trendelenburg position and the supine position. LIMITATIONS: No catheterization and study limited to healthy volunteers.Publication Open Access In situ formation of copper phosphate on hydroxyapatite for wastewater treatment(Multidisciplinary Digital Publishing Institute (MDPI), 2022) Rahmani, Fatemeh; Ghadi, Arezoo; Khaksar, Samad; Doustkhah, Esmail; PhD Student; Koç University Tüpraş Energy Center (KUTEM) / Koç Üniversitesi Tüpraş Enerji Merkezi (KÜTEM)Here, we control the surface activity of hydroxyapatite (HAp) in wastewater treatment which undergoes peroxodisulfate (PDS) activation. Loading the catalytically active Cu species on HAp forms a copper phosphate in the outer layer of HAp. This modification turns a low active HAp into a high catalytically active catalyst in the dye degradation process. The optimal operational conditions were established to be [Cu-THAp](0) = 1 g/L, [RhB](0) = 20 mg/L, [PDS](0) = 7.5 mmol/L, and pH = 3. The experiments indicate that the simultaneous presence of Cu-THAp and PDS synergistically affect the degradation process. Additionally, chemical and structural characterizations proved the stability and effectiveness of Cu-THAp. Therefore, this work introduces a simple approach to water purification through green and sustainable HAp-based materials.Publication Open Access Plasmon-coupled photocapacitor neuromodulators(American Chemical Society (ACS), 2020) Ülgüt, Burak; Çetin, Arif E.; N/A; N/A; Department of Molecular Biology and Genetics; Department of Electrical and Electronics Engineering; Department of Chemical and Biological Engineering; Melikov, Rustamzhon; Srivastava, Shashi Bhushan; Karatüm, Onuralp; Doğru-Yüksel, Itır Bakış; Jalali, Houman Bahmani; Sadeghi, Sadra; Dikbaş, Uğur Meriç; Kavaklı, İbrahim Halil; Nizamoğlu, Sedat; PhD Student; Researcher; PhD Student; PhD Student; Master Student; Faculty Member; Faculty Member; Department of Molecular Biology and Genetics; Department of Electrical and Electronics Engineering; Department of Chemical and Biological Engineering; Graduate School of Sciences and Engineering; College of Sciences; College of Engineering; N/A; N/A; N/A; N/A; N/A; N/A; N/A; 40319; 130295Efficient transduction of optical energy to bioelectrical stimuli is an important goal for effective communication with biological systems. For that, plasmonics has a significant potential via boosting the light-matter interactions. However, plasmonics has been primarily used for heat-induced cell stimulation due to membrane capacitance change (i.e., optocapacitance). Instead, here, we demonstrate that plasmonic coupling to photocapacitor biointerfaces improves safe and efficacious neuromodulating displacement charges for an average of 185% in the entire visible spectrum while maintaining the faradic currents below 1%. Hot-electron injection dominantly leads the enhancement of displacement current in the blue spectral window, and the nanoantenna effect is mainly responsible for the improvement in the red spectral region. The plasmonic photocapacitor facilitates wireless modulation of single cells at three orders of magnitude below the maximum retinal intensity levels, corresponding to one of the most sensitive optoelectronic neural interfaces. This study introduces a new way of using plasmonics for safe and effective photostimulation of neurons and paves the way toward ultrasensitive plasmon-assisted neurostimulation devices.Publication Open Access Nonlinear nanomechanical mass spectrometry at the single-nanoparticle level(American Chemical Society (ACS), 2019) Yüksel, Mert; Orhan, Ezgi; Yanık, Cenk; Arı, Atakan B.; Hanay, M. Selim; Department of Electrical and Electronics Engineering; Demir, Alper; Faculty Member; Department of Electrical and Electronics Engineering; College of Engineering; 3756Nanoelectromechanical systems (NEMS) have emerged as a promising technology for performing the mass spectrometry of large biomolecules and nanoparticles. As nanoscale objects land on NEMS sensors one by one, they induce resolvable shifts in the resonance frequency of the sensor proportional to their weight. The operational regime of NEMS sensors is often limited by the onset of nonlinearity, beyond which the highly sensitive schemes based on frequency tracking by phase-locked loops cannot be readily used. Here, we develop a measurement architecture with which to operate at the nonlinear regime and measure frequency shifts induced by analytes in a rapid and sensitive manner. We used this architecture to individually characterize the mass of gold nanoparticles and verified the results by performing independent measurements of the same nanoparticles based on linear mass sensing. Once the feasibility of the technique is established, we have obtained the mass spectrum of a 20 nm gold nanoparticle sample by individually recording about 500 single-particle events using two modes working sequentially in the nonlinear regime. The technique obtained here can be used for thin nanomechanical structures that possess a limited dynamic range.Publication Open Access Silicon microsphere photonics - art. no. 65931J(Society of Photo-optical Instrumentation Engineers (SPIE), 2007) Department of Physics; Department of Electrical and Electronics Engineering; Serpengüzel, Ali; Kurt, Adnan; Ayaz, Ulaş Kemal; Faculty Member; Teaching Faculty; Department of Physics; Department of Electrical and Electronics Engineering; College of Sciences; 27855; 194455; N/AElectrophotonic integrated circuits (EPICs), or alternatively, optoelectronic integrated circuit (OEICs) are the natural evolution of the microelectronic integrated circuit (IC) with the added benefit of photonic capabilities. Traditionally, the microelectronics IC industry has been based on group IV silicon, whereas the microphotonics industry on group III-V semiconductors. However, silicon based photonic microdevices have been making strands in "siliconizing" photonics. Silicon microspheres with their high quality factor whispering gallery modes (WGMs), are ideal candidates for wavelength division multiplexing (WDM) in the standard near-infrared telecommunications bands. In our experiments, we are using silicon microspheres with a refractive index of 3.48 and a radius of 500 micrometers. The optical resonances of the silicon microspheres provide the necessary narrow linewidths, that are needed for high resolution WDM applications. Potential WDM applications include filters, modulators, switches, detectors, and possibly light sources.Publication Open Access Effects of Bloch's hydrodynamic model on surface plasmon polariton dispersion curve and enhanced transmission of light through single nano-apertures(Society of Photo-optical Instrumentation Engineers (SPIE), 2009) Department of Physics; Çetin, Arif Engin; Müstecaplıoğlu, Özgür Esat; Faculty Member; Department of Physics; College of Sciences; N/A; 1674We have studied the surface plasmon theory with Bloch's hydrodynamic model. The results of the analysis done by Bloch model have been compared with the ones done with Drude model and the dominant differences between two models in valid frequency range have been shown. The transmittance of the slit embedded in a metal layer has been investigated by these models and the differences have been emphasized. An electron density dependent parameter defined by Bloch model has been used to control the transmission behavior of the light through nano-apertures. A system consisting of a nano-slit formed in a metal layer with a periodically textured surface used for beam focusing has been introduced and how the focusing capacity of the system is controlled by the parameter defined by Bloch model has been shown.Publication Open Access Coverage and throughput analysis for FRET-based mobile molecular sensor/actor nanonetworks(Elsevier, 2014) Kuşcu, Murat; Akan, Özgür Barış; Faculty Member; College of EngineeringNanonetworks are envisaged to expand the capabilities of single nanomachines by enabling collaboration through communication between them. Forster Resonance Energy Transfer (FRET) observed among fluorescent molecules is a promising means of high-rate and reliable information transfer between single fluorophore-based nanoscale molecular machines. Recent theoretical studies have underlined its practicality for mobile ad hoc nanonetworks consisting of functionalized fluorescent molecules. In this study, we focus on the spatial characteristics of FRET-Based Mobile Molecular Sensor/Actor Nanonetworks (FRET-MSAN) by investigating the network performance in terms of communication coverage, network throughput and information propagation rate through extensive Monte Carlo simulations. The effect of fundamental system parameters related to FRET and to the mobility of the network nodes on the network performance is revealed. The results of the simulations indicate that the throughput and propagation rate as a function of distance from the information source are well-fitted by exponential curves. We also observe that the impact of FRET mechanism suppresses the effect of Brownian motion of network nodes on the exciton mobility.