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Publication Metadata only A deep etching mechanism for trench-bridging silicon nanowires(Iop Publishing Ltd, 2016) Wollschlaeger, Nicole; Österle, Werner; Leblebici, Yusuf; N/A; Department of Mechanical Engineering; Taşdemir, Zuhal; Alaca, Burhanettin Erdem; PhD Student; Faculty Member; Department of Mechanical Engineering; Koç University Surface Science and Technology Center (KUYTAM) / Koç Üniversitesi Yüzey Teknolojileri Araştırmaları Merkezi (KUYTAM); Graduate School of Sciences and Engineering; College of Engineering; N/A; 115108Introducing a single silicon nanowire with a known orientation and dimensions to a specific layout location constitutes a major challenge. The challenge becomes even more formidable, if one chooses to realize the task in a monolithic fashion with an extreme topography, a characteristic of microsystems. The need for such a monolithic integration is fueled by the recent surge in the use of silicon nanowires as functional building blocks in various electromechanical and optoelectronic applications. This challenge is addressed in this work by introducing a topdown, silicon-on-insulator technology. The technology provides a pathway for obtaining wellcontrolled silicon nanowires along with the surrounding microscale features up to a three-orderof-magnitude scale difference. A two-step etching process is developed, where the first shallow etch defines a nanoscale protrusion on the wafer surface. After applying a conformal protection on the protrusion, a deep etch step is carried out forming the surrounding microscale features. A minimum nanowire cross-section of 35 nm by 168 nm is demonstrated in the presence of an etch depth of 10 mu m. Nanowire cross-sectional features are characterized via transmission electron microscopy and linked to specific process steps. The technology allows control on all dimensional aspects along with the exact location and orientation of the silicon nanowire. The adoption of the technology in the fabrication of micro and nanosystems can potentially lead to a significant reduction in process complexity by facilitating direct access to the nanowire during surface processes such as contact formation and doping.Publication Metadata only A universal method for the preparation of magnetic and luminescent hybrid nanoparticles(American Chemical Society (ACS), 2010) Topal, Uğur; N/A; N/A; Department of Chemistry; Kaş, Recep; Sevinç, Esra; Acar, Havva Funda Yağcı; Master Student; Master Student; Faculty Member; Department of Chemistry; Graduate School of Sciences and Engineering; Graduate School of Sciences and Engineering; College of Sciences; N/A; N/A; 178902Hybrid nanoparticles (MDOTs) composed of luminescent quantum dots (QDs) and superparamagnetic iron oxides (SPIOs) were prepared by the ligand-exchange mechanism in a simple and versatile extraction method. In this method, aqueous QDs (CdS or CdTe) coated with carboxylated ligands exchange the fatty acid (lauric acid) coating of SPIOs in a water chloroform extraction process. QDs form a coating around SPIOs and transfer them into the aqueous phase in high efficiency. The method worked successfully with both small and polymeric coating molecules selected as cysteine, 2-mercaptopropionic acid, and a poly(acrylic acid)/mercaptoacetic acid mixture. The original properties of the nanoparticles were well-preserved in the hybrid structures: All MDOTS showed ferrofluidic behavior and had a luminescence in the original color of the QD. Magnetic properties and the luminesence intensity of MDOTs can be easily tuned with the SPIO/QD ratio. All particles are small and show very good stability (optical and colloidal) over months. For stable MDOTs with good luminescence properties, highly luminescent aqueous QDs (CdS or CdTe) with the mentioned coatings were prepared. The first examples of CdTe coated with 2MPA emitting from green to red and CdTe-PAA/MAA were provided as well.Publication Metadata only Adsorption and transport of CH4, CO2, H-2 mixtures in a bio-MOF material from molecular simulations(Amer Chemical Soc, 2011) N/A; N/A; Department of Chemical and Biological Engineering; Atcı, Erhan; Eruçar, İlknur; Keskin, Seda; Master Student; PhD Student; Faculty Member; Department of Chemical and Biological Engineering; Graduate School of Sciences and Engineering; Graduate School of Sciences and Engineering; College of Engineering; N/A; 260094; 40548Accurate description of gas adsorption and diffusion in nanoporous materials is crucial in envisioning new materials for adsorption-based and membrane-based gas separations. This study provides the first information about the equilibrium and transport properties of different gas mixtures in a bio-metal organic framework (bio-MOF). Adsorption isotherms and self-diffusivity coefficients of CH4, CO2, H-2, and their binary mixtures in bio-MOF-11 were computed using grand canonical Monte Carlo and equilibrium molecular dynamics simulations. Results showed that bio-MOF-11 exhibits significantly higher adsorption selectivity for CO2 over CH4 and H-2 than the widely studied MOFs. Bio-MOF-11 outperforms several isoreticular MOFs, traditional zeolites, and zeolite imidazolate frameworks in membrane-based separations of CH4/H-2, CO2/CH4, and CO2/H-2 mixtures due to its high gas permeability and permeation selectivity. The methods used in this work will assess the potential of bio-MOFs in gas separations and accelerate development of new bio-MOFs for targeted applications by providing molecular insights into adsorption transport of gas mixtures.Publication Metadata only Adsorption, diffusion, and separation of CH4/H-2 mixtures in covalent organic frameworks: molecular simulations and theoretical predictions(amer Chemical Soc, 2012) N/A; Department of Chemical and Biological Engineering; Keskin, Seda; Faculty Member; Department of Chemical and Biological Engineering; College of Engineering; 40548Grand canonical Monte Carlo and equilibrium molecular dynamics simulations were used to compute adsorption isotherms and self-diffusivities of CH4/H2 mixtures at various compositions in three representative covalent organic frameworks (COFs). Several properties of COFs such as adsorption selectivity, working capacity, diffusion selectivity, gas permeability, and membrane selectivity were evaluated and were compared with metal organic frameworks (MOFs), zeolites, zeolite imidazolate frameworks (ZIFs), and carbon nanotubes. Results showed that COF-6 outperforms traditional zeolites CHA, LTA, and ITQ-29 and MOFs IRMOF-1, CuBTT, and MOF-177 in adsorption-based CH4 selectivity. Membrane selectivities of COF-5, COF-6, and COF-10 were found to be higher than those of zeolites and similar to ZIFs and MOFs. Adsorption isotherms and diffusivities of CH4/H2 mixtures in the pores of COF-6 were computed using both atomically detailed simulations and theoretical correlations. Results showed that theoretical correlations based on single component adsorption and diffusion data can be used to accurately predict mixture adsorption and diffusion of gases in COFs.Publication Metadata only Aerogels for optofluidic waveguides(MDPI, 2017) Jonas, Alexandr; N/A; Department of Physics; Department of Chemical and Biological Engineering; Özbakır, Yaprak; Erkey, Can; Kiraz, Alper; PhD Student; Faculty Member; Faculty Member; Department of Physics; Department of Chemical and Biological Engineering; Graduate School of Sciences and Engineering; College of Sciences; College of Engineering; N/A; 29633; 22542Aerogels-solid materials keeping their internal structure of interconnected submicron-sized pores intact upon exchanging the pore liquid with a gas-were first synthesized in 1932 by Samuel Kistler. Overall, an aerogel is a special form of a highly porous material with a very low solid density and it is composed of individual nano-sized particles or fibers that are connected to form a three-dimensional network. The unique properties of these materials, such as open pores and high surface areas, are attributed to their high porosity and irregular solid structure, which can be tuned through proper selection of the preparation conditions. Moreover, their low refractive index makes them a remarkable solid-cladding material for developing liquid-core optofluidic waveguides based on total internal reflection of light. This paper is a comprehensive review of the literature on the use of aerogels for optofluidic waveguide applications. First, an overview of different types of aerogels and their physicochemical properties is presented. Subsequently, possible techniques to fabricate channels in aerogel monoliths are discussed and methods to make the channel surfaces hydrophobic are described in detail. Studies in the literature on the characterization of light propagation in liquid-filled channels within aerogel monoliths as well as their light-guiding characteristics are discussed. Finally, possible applications of aerogel-based optofluidic waveguides are described.Publication Metadata only Anisotropic gold nanostructures: optimization via in silico modeling for hyperthermia(Amer Chemical Soc, 2018) Singh, Ajay Vikram; Jahnke, Timotheus; Wang, Shuo; Xiao, Yang; Alapan, Yunus; Kozielski, Kristen; David, Hilda; Richter, Gunther; Bill, Joachim; Laux, Peter; Luch, Andreas; Sitti, Metin; Department of Electrical and Electronics Engineering; N/A; Onbaşlı, Mehmet Cengiz; Kharratian, Soheila; Faculty Member; PhD Student; Department of Electrical and Electronics Engineering; College of Engineering; Graduate School of Sciences and Engineering; 258783; N/AProtein- and peptide-based manufacturing of self-assembled supramolecular functional materials has been a formidable challenge for biomedical applications, being complex in structure and immunogenic in nature. In this context, self assembly of short amino acid sequences as simplified building blocks to design metal-biomolecule frameworks (MBioFs) is an emerging field of research. Here, we report a facile, bioinspired route of anisotropic nanostructure synthesis using gold binding peptides (10-15mers) secreted by cancer cells. The bioinformatics tool i-TASSER predicts the effect of amino acid sequences on metal binding sites and the secondary structures of the respective peptide sequence. Electron microscopy, X-ray, infrared, and Raman spectroscopy validated the versatile anisotropic gold nanostructures and the metal-bioorganic nature of this biomineralization. We studied the influence of precursor salt, pH, and peptide concentration on the evolution of nanoleaf, nanoflower, nanofiber, and dendrimer-like anisotropic MBioFs. Characterization of photothermal properties using infrared laser (785 nm) revealed excellent conversion of light into heat. Exposure of bacterial cells in culture exhibits high rate of photothermal death using lower laser power (1.9 W/cm(2)) compared with recent reports. The MBioF's self-assembly process shown here can readily be extended and adapted to superior plasmonic material synthesis with a promising photothermal effect for in vivo biofilm destruction and cancer hyperthermia applications.Publication Metadata only Atomistic simulations for adsorption, diffusion, and separation of gas mixtures in zeolite imidazolate frameworks(Amer Chemical Soc, 2011) N/A; Department of Chemical and Biological Engineering; Keskin, Seda; Faculty Member; Department of Chemical and Biological Engineering; College of Engineering; 40548Atomically detailed simulations were used to assess the performance of zeolite imidazolate frameworks (ZIFs) for separation of CH4/H-2, CO2/CH4, and CO2/H-2 mixtures to provide information for material selection in adsorbent and membrane designs. Adsorption isotherms and self-diffusivities of gas mixtures in ZIFs were computed using grand canonical Monte Carlo and equilibrium molecular dynamics simulations, respectively. Adsorption selectivity, diffusion selectivity, and permeation selectivity of ZIF membranes were calculated on the basis of the results of atomistic simulations. Selectivity and permeability of gases through ZIF membranes were compared to well-known zeolite membranes and metal organic framework (MOF) membranes. Results showed that ZIF-3 and ZIF-10 exhibit significantly higher adsorption and permeation selectivities for separation of all gas mixtures as compared to widely studied MOF membranes.Publication Open Access Design and adoption of low-cost point-of-care diagnostic devices: Syrian case(Multidisciplinary Digital Publishing Institute (MDPI), 2021) Alseed, M. Munzer; Yetişen, Ali K.; Department of Mechanical Engineering; Department of Electrical and Electronics Engineering; Syed, Hamzah; Taşoğlu, Savaş; Onbaşlı, Mehmet Cengiz; Faculty Member; Faculty Member; Faculty Member; Department of Mechanical Engineering; Department of Electrical and Electronics Engineering; Koç University Research Center for Translational Medicine (KUTTAM) / Koç Üniversitesi Translasyonel Tıp Araştırma Merkezi (KUTTAM); KU Arçelik Research Center for Creative Industries (KUAR) / KU Arçelik Yaratıcı Endüstriler Uygulama ve Araştırma Merkezi (KUAR); School of Medicine; College of Engineering; 318138; 291971; 258783Civil wars produce immense humanitarian crises, causing millions of individuals to seek refuge in other countries. The rate of disease prevalence has inclined among the refugees, increasing the cost of healthcare. Complex medical conditions and high numbers of patients at healthcare centers overwhelm the healthcare system and delay diagnosis and treatment. Point-of-care (PoC) testing can provide efficient solutions to high equipment cost, late diagnosis, and low accessibility of healthcare services. However, the development of PoC devices in developing countries is challenged by several barriers. Such PoC devices may not be adopted due to prejudices about new technologies and the need for special training to use some of these devices. Here, we investigated the concerns of end users regarding PoC devices by surveying healthcare workers and doctors. The tendency to adopt PoC device changes is based on demographic factors such as work sector, education, and technology experience. The most apparent concern about PoC devices was issues regarding low accuracy, according to the surveyed clinicians.Publication Metadata only Effect of Al2O3 and ZrO2 filler material on the microstructural, thermal and dielectric properties of borosilicate glass-ceramics(Multidisciplinary Digital Publishing Institute (MDPI), 2023) Karaahmet, Oğuz; Çiçek, Buğra; N/A; Department of Chemistry; Arıbuğa, Dilara; Balcı, Özge; PhD Student; Researcher; Department of Chemistry; Graduate School of Sciences and Engineering; College of Sciences; N/A; 295531Various glass-ceramics are widely used or considered for use as components of microelectronic materials due to their promising properties. In this study, borosilicate glass was prepared using the powder metallurgical route and then mixed with different amounts of Al2O3 and ZrO2 filler materials. Glass-ceramics are produced by high-energy ball milling and conventional sintering process under Ar or air. In this study, the effects of different filler materials and different atmospheres on the microstructural, thermal and dielectric properties were investigated. The data showed that ZrO2 filler material led to better results than Al2O3 under identical working conditions and similar composite structures. ZrO2 filler material significantly enhanced the densification process of glass-ceramics (100% relative density) and led to a thermal conductivity of 2.904 W/K.m, a dielectric constant of 3.97 (at 5 MHz) and a dielectric loss of 0.0340 (at 5 MHz) for the glass with 30 wt.% ZrO2 sample. This paper suggests that prepared borosilicate glass-ceramics have strong sinterability, high thermal conductivity, and low dielectric constants, making them promising candidates for microelectronic devices.Publication Metadata only Emergence of 2MPA as an effective coating for highly stable and luminescent quantum dots(American Chemical Society (ACS), 2009) Özen, Can; Lieberwirth, Ingo; Department of Chemistry; N/A; Department of Chemistry; Acar, Havva Funda Yağcı; Kaş, Recep; Yurtsever, İsmail Ersin; Faculty Member; Master Student; Faculty Member; Department of Chemistry; College of Sciences; Graduate School of Sciences and Engineering; College of Sciences; 178902; N/A; 71293-Mercaptopropionic acid (3MPA) is a popular coating material for the preparation of aqueous quantum dots, yet its isomer 2-mercaptopropionic acid (2MPA) has not been much studied. Here, we present a detailed study on the aqueous synthesis of CdS quantum dots with a 2MPA coating. Reaction variables Such as the Cd/S ratio, 2MPA/Cd ratio, pH, and temperature were individually studied to evaluate the influence of these variables on particle size and luminescence. At the optimum ratios and reaction conditions, a quantum yield (QY) as high as 54% was achieved. These quantum dots (QDs) have exhibited excellent colloidal and photostability over eight months of study. The color of the emission can be tuned by the reaction temperature and/or Cd/S ratio. 3MPA-coated US nanoparticles were prepared at various 3MPA/Cd ratios for comparison. The highest QY achieved for CdS-3MPA was 15%, and the luminescence decreased dramatically overtime. Ab initio calculations and spectroscopic characterization did not reveal a significant difference in the structure or particle-coating interaction between 2MPA- and 3MPA-coated QDs. Luminesence lifetime measurements indicated longer lifetimes and a larger contribution of the surface-related emission, indicating better removal of quenching defects froth the surface in 2MPA-coated particles compared to that of CdS-3MPA. On the basis of the provided evidence, we report 2MPA as a new and better alternative to the widely used 3MPA for superior luminescence and long-term photo and colloidal stability.