1. Mammalian translation termination intermediates captured using PDMS microfluidics-based time-resolved cryo-EM (TRCEM) Dadhwal, Prikshat 2024 Theses BiologyBiochemistryBiophysicsEukaryotic cells--GeneticsGenetic translationRibosomesSilicaCryoelectronics
2. Multiscale Structural and Biophysical Studies of Protein-Compound Interactions Trudeau, Stephen Joseph 2024 Theses BiophysicsProtein-protein interactionsMetabolitesThysanuraProteomics
3. Optical Coherence Tomography Techniques for Contextualizing and Reconstructing Displacement Responses in the Mammalian Cochlea Frost, Brian Lance 2024 Theses Electrical engineeringBiophysicsCochlea--AnatomyMammals--AnatomyOptical coherence tomographyHair cells
4. A Computational Approach to Rational Engineering of Protein Crystallization Banayan, Nooriel Elan 2023 Theses BiophysicsX-ray crystallographyCrystalloids (Botany)CrystallizationArginineLysine
5. Distinctive Regulation of Low-Voltage-activated Calcium Channels by Neural precursor cell Expressed Developmentally Down-regulated protein 4 (NEDD4) Family E3 Ubiquitin Ligases Darko-Boateng, Arden 2023 Theses PhysiologyBiophysicsCytologyCalcium channelsChronic pain--TreatmentUbiquitinHypertension
6. Exploring the Free Energy Landscape of RNA Stem-loop Folding Jang, Sukjin Steve 2023 Theses BiophysicsBiomolecules--StructureRNA--StructureNucleic acids
7. NMR Studies of the GCN4 Transcription Factor and Hox DNA Consensus Sequences Crawley, Timothy 2023 Theses BiophysicsMolecular biologyDNABootstrap (Statistics)Nuclear magnetic resonance spectroscopyDNA-binding proteins
8. Solid-State NMR Lineshape Broadening at Cryogenic Temperatures Yi, Xu 2023 Theses BiophysicsLow temperature researchTetrahydrofolate dehydrogenaseEscherichia coli
9. Structural and Functional Studies of CNG channels Hu, Zhengshan 2023 Theses BiologyBiochemistryBiophysicsCyclic nucleotides--AnalysisIon channelsCryoelectronicsElectron microscopy
10. Structure and Function of Glutamate Receptor-Like Channels (GLRs) Green, Marriah Noel 2023 Theses NutritionBiochemistryBiophysicsGlutamic acidLigand binding (Biochemistry)Arabidopsis thalianaCell receptors
11. Studies on Eukaryotic Pre-mRNA 3'-End Processing: Insights into PAS Recognition and the U7 snRNP activity Gutierrez Tamayo, Pedro A. 2023 Theses BiologyBiochemical geneticsBiophysicsEukaryotic cells--GeneticsMessenger RNAVertebratesMammals--Molecular genetics
12. The Functional Mechanism of the Bacterial Ribosome, an Archetypal Biomolecular Machine Ray, Korak Kumar 2023 Theses BiophysicsChemistry, Physical and theoreticalRibosomesBiomoleculesMolecular biology--Statistical methodsBayesian statistical decision theoryMarkov processes
13. An Investigation into the Means and Methods through which Breast Cancer Cells are able to Migrate Avard, Rachel 2022 Theses ChemistryCytologyBiophysicsBreast--Cancer--PathophysiologyCell migration
14. Real-time observation of vitamin B12 transport by BtuCD-F at the single-molecule level Zhu, Lingwei 2022 Theses BiophysicsHydrolysisVitamin B12ATP-binding cassette transporters
15. Structural studies on bestrophin anion channels by cryogenic electron microscopy Owji, Aaron Paul 2022 Theses BiophysicsBiochemistryEye--PhysiologyChloride channelsKlebsiella pneumoniaeMammalsMutagenesis
16. A Multiphasic-Fluid-Structure Interaction Formulation Based on Mixture Theory and Its Finite Element Implementation in FEBio Shim, Jay Jayne 2021 Theses BiomechanicsBiophysics
17. Development of next-generation voltage-gated calcium channel inhibitors using engineered nanobodies Morgenstern, Travis James 2021 Theses PharmacologyBiophysicsCytologyImmunoglobulinsProtein bindingCardiovascular system--Diseases--EtiologyNervous system--Diseases--Etiology
18. Directed Evolution of Protein Receptor Binding for Small Molecule Therapeutics Using Fluorescence Polarization Bannier, Sean David 2021 Theses ChemistryBiochemistryBiophysicsTetracylcinesProtein bindingPolarization (Light)Yeast
19. Electromechanical Coupling in Cells and Its Effects on Membrane Tension and Conductance Jones Molina, John Anthony 2021 Theses BiophysicsCytologyBiologyCell membranes
20. How to steal ribosomes: structural studies of two different internal ribosome entry sites Neupane, Ritam 2021 Theses BiochemistryBiophysicsVirologyRibosomesEukaryotic cells
21. Mechanics of Epithelial Tissue Morphogenesis Wang, Xun 2021 Theses Mechanical engineeringBiomechanicsBiophysicsMorphogenesis--Molecular aspectsDrosophila melanogasterEpithelial cellsEmbryologyGuinea pigsAbnormalities, HumanWound healingMetastasis
22. Spatial Organization and Segregation of Cells in Breast Cancer Devanny, Alexander 2021 Theses BiophysicsBreast--CancerCytologyCancer cellsBreast--Tumors
23. Structural and Biochemical Studies of the Human pre-mRNA 3’-end Processing Complex Hamilton, Keith 2021 Theses BiochemistryBiophysicsMessenger RNA--AnalysisMutagenesis
24. Structural Studies of E. coli FtsZ Filaments McCoy, Kelsey 2021 Theses BiophysicsMicrobiologyCytoskeletal proteinsEscherichia coliStaphylococcus aureus
25. Structure and Function of a Transposon-Encoded CRISPR-Cas System Halpin-Healy, Tyler Sheehan 2021 Theses BiochemistryBiophysicsMolecular biologyVibrio choleraeRNADNA
26. The pH-sensing mechanism of antibody recycling by the neonatal Fc receptor revealed using free energy perturbation calculations Sampson, Jared Matthew 2021 Theses BiophysicsImmune system--PhysiologyImmunoglobulinsChemical bondsMutation (Biology)
27. Visualizing cell surface interactions using cryogenic electron microscopy Rapp, Micah 2021 Theses BiophysicsBiochemistryElectron microscopyCOVID-19 (Disease)Low temperature engineeringCell membranesCell receptorsImmunoglobulins
28. Investigation of Ribonuclease HI handle region dynamics using Solution-state nuclear magnetic resonance spectroscopy, Molecular Dynamic simulations and X-ray crystallography Martin, James Arthur 2020 Theses BiophysicsBiochemistryHIV (Viruses)Mouse leukemia virusesRNAEndonucleasesNuclear magnetic resonance spectroscopy
29. Optimization and characterization of noise for ion channel and carbon nanotube biosensing platforms Ong, Peijie 2020 Theses Electrical engineeringBiophysicsNanotechnologyCarbon nanotubes
30. Structural and Biophysical Studies of Hair Cell Mechanotransduction Proteins Dionne, Gilman 2020 Theses BiochemistryBiophysicsHair cellsProteinsCellular signal transduction--Research
31. The Critical Assessment of Protein Dynamics using Molecular Dynamics (MD) Simulations and Nuclear Magnetic Resonance (NMR) Spectroscopy Experimentation Hsu, Andrew 2020 Theses BiophysicsBiochemistryNuclear magnetic resonance spectroscopyMolecular dynamics--Computer simulation
32. Biomolecular NMR spectroscopy: Application to the study of the piRNA-pathway protein GTSF1, and backbone and side-chain spin relaxation methods development O'Brien, Paul 2019 Theses BiophysicsBiochemistryNuclear magnetic resonance spectroscopyProteins--StructureMolecular dynamics
33. Density-Dependent Mu Opioid Receptor Function Revealed by Single-Molecule Microscopy Holsey, Michael David 2019 Theses BiophysicsCytologyNeurosciencesOpioids--ReceptorsArrestinsOpioidsCell membranes
34. Dynamics of Translation Elongation in an mRNA Context with a High Frameshifting Propensity Bailey, Nevette Adia 2019 Theses BiophysicsRibosomesProteins--SynthesisGenetic translationMessenger RNATransfer RNA
35. Nucleosome Curtains and their application to the study of DNA condensation by condensin Moevus, Corentin Jean 2019 Theses BiochemistryBiophysicsDNACondensed matter
36. Potassium Channel KcsA and Its Lipid Environment Howarth, Gary Stanley 2019 Theses BiophysicsChemistry, Physical and theoreticalMembrane proteinsPotassium channelsNuclear magnetic resonance spectroscopy
37. Solving Challenging Structures using Single-Particle Cryogenic Electron Microscopy Tan, Yong Zi 2019 Theses BiochemistryBiophysicsElectron microscopyMacromolecules--StructureRibosomesMembrane proteinsCytology--Technique
38. Studies of the structure of potassium channel KcsA in the open conformation and the effect of anionic lipids on channel inactivation Zhang, Dongyu 2019 Theses ChemistryBiophysicsPotassium channelsMembrane proteinsMembrane lipids
39. The sensitivity of the cochlear amplifier to changes in operating conditions Wang, Yi 2019 Theses Biomedical engineeringBiophysicsCochleaFrequency response (Dynamics)Animal models in researchAudiology
40. Using single molecule magnetic tweezers to dissect titin energy release during muscle contraction Eckels, Edward Charles 2019 Theses BiophysicsBiochemistryPhysiologyMagnetic tweezersMuscle contractionProtein folding
41. Allosteric Coupling, Nucleotide Binding and ATP Hydrolysis by Hsp70 Chaperones on a Structural Basis Wang, Wei 2018 Theses BiologyBiochemistryBiophysicsAllosteric regulationHeat shock proteins
42. Dynamic Nuclear Polarization with Biradical Affinity Reagents Rogawski, Rivkah 2018 Theses BiophysicsChemistryBiochemistryPolarization (Nuclear physics)Biradicals
43. Integration of EGFR and LIN-12/Notch signaling in Vulval Precursor Cell fate specification in Caenorhabditis elegans Underwood, Ryan 2018 Theses BiochemistryMetazoaCell interactionCellular signal transductionBiophysics
44. Mathematically Modeling the Mechanics of Cell Division Wang, Shuyuan 2018 Theses PhysicsBiophysicsCell divisionCytokinesis--Mathematical modelsCells--Mechanical properties
45. Mechanical Regulation in Cell Division and in Neurotransmitter Release Thiyagarajan, Sathish 2018 Theses PhysicsBiophysicsCytologyCell divisionNeurotransmitters
46. Mechanics of Gram-positive bacterial cell adhesion Echelman, Daniel Jay 2018 Theses BiophysicsNanoscienceMicrobiologyCell adhesion--Molecular aspectsGram-positive bacteriaCells--Mechanical properties
47. Structural and biophysical studies of the Drosophila melanogaster Dpr and DIP families Cosmanescu, Filip 2018 Theses BiochemistryNeurosciencesBiophysicsDrosophila melanogasterNeurons
48. Structural Determinants of Ionotropic Glutamate Receptor Function Revealed by Cryo- electron Microscopy Twomey, Edward Charles 2018 Theses BiophysicsGlutamic acid--ReceptorsElectron microscopyNeural transmissionCentral nervous system
49. Studies of Allostery in the Potassium Channel Kcsa by Solid-state NMR Xu, Yunyao 2018 Theses BiophysicsChemistryPotassium channelsAllosteric regulation
50. Synaptic Elasticity Yang, Ju 2018 Theses BiophysicsNeurosciencesNanotechnologySynapsesNeuroplasticityElasticity
51. Systematically Mapping the Epigenetic Context Dependence of Transcription Factor Binding Kribelbauer, Judith Franziska 2018 Theses BiochemistryBioinformaticsBiophysicsTranscription factorsGene regulatory networksEpigenetics
52. The Physical State of Water in Dormant Bacteria DeLay, Michael 2018 Theses BiophysicsBacteriaBacterial sporesWaterBiology
53. The Role of Eukaryotic Recombinase Loop L1 During Homologous Recombination Steinfeld, Justin Benjamin 2018 Theses BiophysicsBiochemistryGeneticsGenetic recombinationEukaryotic cells
54. The Saccharomyces cerevisiae Srs2 Helicase Regulates Homologous Recombination through the Disassembly of Recombination Intermediates Kaniecki, Kyle Stephen 2018 Theses GeneticsBiophysicsBiochemistrySaccharomyces cerevisiaeGenetic recombination
55. The Synaptic Weight Matrix: Dynamics, Symmetry Breaking, and Disorder Fumarola, Francesco 2018 Theses NeurosciencesBiophysicsNeural circuitryDynamics
56. Accurate and Sensitive Quantification of Protein-DNA Binding Affinity Rastogi, Chaitanya 2017 Theses GeneticsBiophysicsStatisticsDNA-protein interactionsTranscription factors
57. Cryo-electron microscopy and single particle reconstructions of the Leishmania major ribosome and of the encephalomyocarditis virus internal ribosome entry site bound to the 40S subunit Jobe, Amy Beth 2017 Theses Electron microscopyRibosomesLeishmaniaRNACryoelectronicsBiologyBiochemistryBiophysics
58. Development and application of chemical probes for vibrational imaging by stimulated Raman scattering Hu, Fanghao 2017 Theses Chemistry, Physical and theoreticalBiophysicsRaman effectVibration--MeasurementRaman spectroscopy
59. Dysfunctional Sodium Channels and Arrhythmogenesis: Insights into the Molecular Regulation of Cardiac Sodium Channels Using Transgenic Mice Abrams, Jeffrey 2017 Theses BiophysicsSodium channelsTransgenic miceElectrophysiology
60. Gating mechanisms underlying deactivation slowing by atrial fibrillation mutations and small molecule activators of KCNQ1 Peng, Gary 2017 Theses Atrial fibrillationPotassium channelsMembrane proteinsArrhythmia--PathophysiologyIon channelsBiophysics
61. Metabolic Imaging and Applications in Protein and Lipid Homeostasis Shen, Yihui 2017 Theses ChemistryBiophysicsCell metabolismRaman spectroscopyHomeostasis
62. Nanoscale Electrical and Coarse-grained Molecular Dynamics Studies of Influenza Hemagglutinin-mediated Membrane Fusion Pores Alcott, Brett Eugene 2017 Theses BiophysicsBiochemistryVirologyMolecular dynamicsMembrane fusion
63. Potassium Channelopathies in Pulmonary Arterial Hypertension Bohnen, Michael S. 2017 Theses BiophysicsMedicinePulmonary hypertensionPotassium channelsIon channels
64. Regulation of Release Factor 2 in Non-canonical Translation Pathways Huang, Bridget Yih Jiin 2017 Theses Bacterial proteinsRibosomesBiochemistryProteins--SynthesisBiophysics
65. Single-molecule observations of hRPA, RAD51, and RAD52 on single-stranded DNA Ma, Chu Jian 2017 Theses BiochemistryBiophysicsDNA replicationGenetic recombinationMolecular biology
66. Single-molecule studies of nucleic acid dynamics using carbon nanotube-based field-effect transistors Daly, Nathan Scott 2017 Theses Nucleic acidsNucleic acid hybridizationPhysical organic chemistryCarbon nanotubesChemistry, Physical and theoreticalBiophysicsElectrical engineering
67. Structural and Functional Studies of TRPML1 and TRPP2 Benvin, Nicole Marie 2017 Theses BiologyBiochemistryBiophysicsTRP channelsProteins--Structure
68. Tools and Methods to Engineer the Industrial Microorganism Acidithiobacillus ferrooxidans Kernan, Timothy Michael 2017 Theses BiophysicsIndustrial microorganismsBioengineering
69. Watching the Replisome: Single-molecule Studies of Eukaryotic DNA Replication Duzdevich, Daniel 2017 Theses DNA replicationMolecular biologyCytologyEukaryotic cells--GeneticsBiologyBiophysics
70. Biomaterial-based Cell Culture Platform for Podocyte Phenotype Study with Shape and Substrate Rigidity Control Hu, Mufeng 2016 Theses Kidneys--PhysiologyBiomedical materialsCell culture--Equipment and suppliesBiomedical engineeringBiophysics
71. Biophysical and anthropogenic contributions to fire disturbance dynamics on the peat-swamp landscape, Indonesia Cattau, Megan E. 2016 Theses Peatland ecologyFiresFire managementBiophysicsEcologyEnvironmental sciencesEnvironmental management
72. Cryo-electron microscopy studies of dynamical features of ribosomes during the translation process Sun, Ming 2016 Theses BiophysicsProteins--StructureRibosomes--StructureRibosomesCryoelectronicsBiologyBiochemistry
73. Dynamics of Stop-codon Recognition by Release Factor 1 Kinz-Thompson, Colin Donald 2016 Theses Genetic translationRibosomesChemistryBiophysicsChemistry, Physical and theoretical
74. Methods for Building Network Models of Neural Circuits DePasquale, Brian David 2016 Theses Neural networks (Neurobiology)--Mathematical modelsNeurosciencesBiophysics
75. Oxidative Folding in Bacteria: Studies Using Single Molecule Force Spectroscopy Kahn, Thomas 2016 Theses Protein foldingOxidoreductasesEscherichia coli--PhysiologyOxidationBiophysicsBiochemistry
76. Single-Molecule Imaging of Conformational Dynamics in a Neurotransmitter Transporter Homolog Kolster, Rachel Ann 2016 Theses BiophysicsNeurosciencesBiological transportNeurotransmitters
77. The relationship between intracellular forces and cellular stiffness investigated by atomic force microscopy Mandriota, Nicola 2016 Theses Cells--Mechanical propertiesCellsBiomechanicsNanotechnologyBiophysics
78. Understanding complex biomolecular systems through the synergy of molecular dynamics simulations, NMR spectroscopy and X-Ray crystallography Zeiske, Tim 2016 Theses Molecular dynamics--Simulation methodsMolecular dynamics--Computer simulationNuclear magnetic resonance spectroscopyBiomolecules--Computer simulationX-ray crystallographyMacromolecules--StructureMolecular dynamicsBiophysicsBiochemistry
79. Advanced Analysis Algorithms for Microscopy Images He, Siheng 2015 Theses Image analysisBiomedical engineeringMicroscopes--TechniqueImage processingMicroscopyBiophysics
80. Antibody loop modeling methods and applications Murrett, Colleen 2015 Theses HIV antibodiesHomology (Biology)Proteins--Structure--Mathematical modelsAlgorithmsChemistryBiophysics
81. Assembly in Dynamic Nanoscale Systems Lam, Amy Tsui-Chi 2015 Theses Ultrastructure (Biology)MicrotubulesNanoscienceNanotechnologyBiophysicsBiomedical engineering
82. Cryo-EM and time-resolved cryo-EM studies on translation Chen, Bo 2015 Theses RibosomesProteins--SynthesisGenetic translationElectron microscopyBiophysicsBiology
83. Identification and Biophysical Characterization of Small Molecules Modulating Protein Disulfide Isomerase in Neurodegenerative Diseases Kaplan, Anna 2015 Theses Nervous system--DegenerationNeuroprotective agentsProtein disulfide isomeraseBiophysicsBiochemistryBiology
84. Inhibition of Voltage-dependent Calcium Channels by Small G-proteins: Determinants, Mechanisms and Applications Puckerin, Akil Anthony 2015 Theses PharmacologyPhysiologyBiophysics
85. Methods Development in Quantum Mechanics and Molecular Mechanics for Drug Discovery Jerome, Steven Volney 2015 Theses BiophysicsChemistry
86. Nonlinear optical microscopy for the invisible: vibrational imaging of small molecules in live cells and electronic imaging of fluorophores into the ultra deep Wei, Lu 2015 Theses ChemistryChemistry, Physical and theoreticalBiophysics
87. Origin of Exocytotic Fusion Pore Dynamics Stratton, Benjamin Somerall 2015 Theses VirusesCellular control mechanismsFusionCell membranesCytologyBiophysics
88. Protein Structure Dynamics and Function at Micelle and Particle Interfaces Chin, Michael 2015 Theses ChemistryBiochemistryBiophysics
89. The Regulation and Function of RGK Proteins on Voltage-Gated Calcium Channel Physiology Chang, Donald Dao-Yuan 2015 Theses GTPase-activating proteinProteins--AnalysisCalcium channelsPhysiologyBiophysics
90. Winning the cellular lottery: how proteins reach and recognize targets in DNA Redding, Sy Eugene 2015 Theses Promoters (Genetics)DNA-protein interactionsDNA-binding proteinsBiophysicsBiochemistryBiology
91. Elucidating the sequence and structural specificities of DNA-binding factors Lazarovici, Allan 2014 Theses BiophysicsCytology
92. Learning from cadherin structures and sequences: affinity determinants and protein architecture Felsovalyi, Klara 2014 Theses Protein bindingCadherinsBiochemistryBioinformaticsBiophysics
93. Proteins at Interfaces: Conformational Behavior and Wear Dumont, Emmanuel Louis Pierre 2014 Theses BiophysicsBiomedical engineering
94. Structural and biophysical characterization of protocadherin extracellular regions Wolcott, Holly Noelle 2014 Theses BiochemistryBiophysics
95. Structure Characterization of the 70S-BipA Complex Using Novel Methods of Single-Particle Cryo-Electron Microscopy Ho, Danny Nam 2014 Theses Bacterial proteinsElectron microscopyAntibacterial agentsCryoelectronicsBiologyBiophysics
96. The Role of Ribosome and tRNA Dynamics in the Regulation of Translation Elongation Ning, Wei 2014 Theses RibosomesGenetic translationTransfer RNABiophysics
97. Advances in structure and small molecule docking predictions for crystallized G-Protein coupled receptors Goldfeld, Dahlia A. 2013 Theses ChemistryBiophysicsG proteins--ReceptorsAdenosine--ReceptorsRhodopsin
98. CysZ: Structural and Functional Studies of a Novel Sulfate Transport Protein Assur, Zahra 2013 Theses CytologyCarrier proteinsBiochemistryBiophysics
99. Designer Exons Inform a Biophysical Model for Exon Definition Arias, Mauricio A. 2013 Theses Exons (Genetics)Molecular biologyBiophysicsMessenger RNABiology
100. Identification of Dendritic Processing in Spiking Neural Circuits Slutskiy, Yevgeniy 2013 Theses NeurosciencesElectrical engineeringBiophysics