Browsing by Subject "Binding kinetics"
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Item Open Access Oligonucleotide-based label-free detection with optical microresonators: strategies and challenges(Royal Society of Chemistry, 2016) Toren, P.; Ozgur E.; Bayındır, MehmetThis review targets diversified oligonucleotide-based biodetection techniques, focusing on the use of microresonators of whispering gallery mode (WGM) type as optical biosensors mostly integrated with lab-on-a-chip systems. On-chip and microfluidics combined devices along with optical microresonators provide rapid, robust, reproducible and multiplexed biodetection abilities in considerably small volumes. We present a detailed overview of the studies conducted so far, including biodetection of various oligonucleotide biomarkers as well as deoxyribonucleic acids (DNAs), ribonucleic acids (RNAs) and proteins. We particularly advert to chemical surface modifications for specific and selective biosensing.Item Open Access The role of ligand rebinding and facilitated dissociation on the characterization of dissociation rates by surface plasmon resonance (SPR) and benchmarking performance metrics(Springer, 2022) Erbaş, Aykut; İnci, Fatih; Vanhaelen, QuentinSurface plasmon resonance (SPR) is a real-time kinetic measurement principle that can probe the kinetic interactions between ligands and their binding sites, and lies at the backbone of pharmaceutical, biosensing, and biomolecular research. The extraction of dissociation rates from SPR-response signals often relies on several commonly adopted assumptions, one of which is the exponential decay of the dissociation part of the response signal. However, certain conditions, such as high density of binding sites or high concentration fluctuations near the surface as compared to the bulk, can lead to non-exponential decays via ligand rebinding or facilitated dissociation. Consequently, fitting the data with an exponential function can underestimate or overestimate the measured dissociation rates. Here, we describe a set of alternative fit functions that can take such effects into consideration along with plasmonic sensor design principles with key performance metrics, thereby suggesting methods for error-free high-precision extraction of the dissociation rates.Item Open Access Sorption studies of Cs+ and Ba2+ cations on magnesite(Elsevier, 1998-05-11) Shahwan, T.; Süzer, Şefik; Erten, H. N.The adsorption behavior of Cs+ and Ba2+ cations on magnesite has been studied as a function of time, cation concentration and temperature, utilizing both the radiotracer method and X-ray photoelectron spectroscopy (XPS). Saturation was approached in about I day for both cations. The sorption data were found to follow Freundlich type isotherms. Sorption of both Cs+ and Ba2+ cations were found to be exothermic in nature with ΔH0 (kJ/mol) of -37, -13 and ΔS0 (kJ/mol·K) of -0.09, -0.009, respectively. Negative ΔG0 values were obtained for both cations, indicating the spontaneity of their sorption on magnesite. The magnitude of ΔG0 suggest that ion exchange is the dominating sorption mechanism. The adsorption behavior of Cs+ and Ba2+ cations on magnesite has been studied as a function of time, cation concentration and temperature, utilizing both the radiotracer method and X-ray photoelectron spectroscopy (XPS). Saturation was approached in about 1 day for both cations. The sorption data were found to follow Freundlich type isotherms. Sorption of both Cs+ and Ba2+ cations were found to be exothermic in nature with ΔH0 (kJ/mol) of -37, -13 and ΔS0 (kJ/mol·K) of -0.09, -0.009, respectively. Negative ΔG0 values were obtained for both cations, indicating the spontaneity of their sorption on magnesite. The magnitude of ΔG0 suggest that ion exchange is the dominating sorption mechanism.