Global ETD Search
Search theses and dissertations gathered from participating repositories worldwide. Every result links back to the library that holds it. No account is needed.
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Showing 1 to 18 of 18 for “"Molecule Dynamics"”.
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Single-molecule dynamics of GPCR signal transducers
Submission published under a 24 month embargo labeled 'U of I Access', the embargo will last until 2027-05-01
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Fluorescence imaging of single molecule dynamics on long single stranded DNA
Recent advances in single-molecule fluorescence imaging techniques have allowed the direct observation of protein dynamics on DNA, but the progress has been largely limited to double-stranded DNA (dsDNA) or short single-stranded DNA (ssDNA). Here, a single molecule imaging approach for observing …
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Probing single-molecule dynamics of molecular motors and gene editing proteins
Single molecule fluorescence imaging is a powerful tool for studying protein dynamics. I have leveraged the power of single molecule imaging in studying two proteins systems: Molecular Motors and Gene Editing Proteins. Kinesin walks on cellular roads called microtubules and transports cellular …
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Visualizing Mast Cell Activation: Single Molecule Dynamics of Early Events in FceRI Signaling
… transduction. In this work we employ single molecule fluorescence imaging techniques to quantify adapter protein recruitment, lateral mobility, receptor aggregation, and cytoskeletal organization to create a better understanding of many key processes in immune cell regulation. We focus on …
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Dynamics and Turnover of Lipid and Protein Domains in Cells and Supported Bilayers
… using dynamic measurements (FRAP and single molecule tracking), first by looking at substrate dye interactions to ensure dynamics were not altered by unintended interactions between dye and substrate. Following these studies it was determined that the commonly used poly-L-lysine substrate …
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Crystalline Protein Dynamics : A Simulation Analysis of Staphylococcal Nuclease
… to furnish insight into functional protein dynamics and will improve models for refinement against diffraction data. In this thesis, molecular dynamics (MD) simulations of crystalline Staphylococcal nuclease are reported and analysed in terms of fluctuations, correlations, X-ray diffuse …
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Single molecule studies of flexible polymer systems
… solutions is not fully understood. Single molecule studies of polymer solutions provide an avenue for studying polymer dynamics and can aid in developing new molecular models of dynamic behavior. For nearly two decades, fluorescentlylabeled double stranded DNA (dsDNA) has been the model …
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An analysis of exciton transport, electron tunneling, and electromigration in nanotube and nanowire systems
… in metal nanowires, electron tunneling in single-molecules, and carbon nanotube photovoltaics - are investigated. In the first area, electromigrative failure of metal nanowires has been shown to form single-molecule tunnel junctions, but the process has remained unpredictable, limiting the yield …
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Quantum Mechanically Derived Biomolecular Force Fields
… must be fit to the properties of small molecules and subsequently transferred to model large proteins. Here, we look to challenge this assumption and create a new class of QUantum mechanical BEspoke (QUBE) biomolecular force fields. QUBE is based around the use of atoms-in-molecule …
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Plasmonic Sensing via Surface-Enhanced Spectroscopies
… gaps between them. The scattering processes of molecules placed in these gaps is drastically enhanced by the hot-spot, a technique utilised in surface-enhanced Raman spectroscopy (SERS). This thesis focuses on the optimisation of the SERS signals from these gaps. What is the limiting volume we …
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Uncovering and Exploiting Cucurbit[8]uril Host-Guest Dynamics in Bulk Mechanical Behaviour
Understanding the contribution of small molecule dynamics to bulk mechanical properties is of increasing importance in progressing the field of smart materials from benchtop curiosity to a design-based approach with myriad application. Hydrogels based on cucurbit[8]uril (CB[8]) supramolecular …
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Correlation Force Spectroscopy for Single Molecule Measurements
… properties of the soft matter, e.g. a polymeric molecule, that connects the gap between the two cantilevers. Modeling of the correlations yields the effective stiffness and damping of the molecule. The resolution in stiffness is limited by the stiffness of the cantilever and the frequency by the …
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Development of the single-molecule tracking and fluorescence lifetime techniques for biophysical measurements and biomedical applications
Single-molecule detection allows us to reveal the biophysical features of rare species in complex samples. Direct characterization of annealing/melting kinetics of nucleic acids without the need for synchronization of molecular states can be achieved with single-molecule detection, but the current …
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Single molecule investigation of transcription activator-like effector search dynamics
… This work describes the application of single molecule fluorescence imaging to the study the TALE search process along specific and non-specific DNA templates. Our work provides a molecular-level picture of the dynamics of TALE-DNA interactions, and our results have revealed an apparently …
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Single molecule studies of branched polymer dynamics
… for topologically complex polymers. Single molecule studies enable the direct observation of polymer chain dynamics at the molecular level; however, the vast majority of single polymer studies have only focused on linear DNA molecules (Chapter 2). In this dissertation, we extend single …
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The Correlated Dynamics of Micron-Scale Cantilevers in a Viscous Fluid
… quantify and provide physical insights into the dynamics of experimentally accessible systems that include a variety of configurations and viscous fluids. It is first shown that the correlated dynamics of both a laterally and vertically offset cantilever pair can be accurately predicted by …
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Message-driven parallel language runtime design and optimizations for multicore-based massively parallel machines
… including NAMD, a widely-used molecular dynamics simulation program, by using this multithreaded runtime on petascale massively parallel machines. In the case of the 100M-atom STMV simulation using NAMD, the multithreaded runtime leads NAMD to achieve about two-fold performance …