Alumni

Thesis: “Characterization of two types of interphase nodes that merge to form cytokinetic nodes for contractile ring assembly in fission yeast”

Thesis title: “Human Engineered Pulsatile Conduits using Engineered Heart Tissue of Defined Composition and Fiber Orientation”

Thesis title: “Characterizing the nonlinearities of the Drosophila melanogaster motion detection algorithm”

Thesis title: “Single Particle Tracking Covariance Analysis with Applications to Studying Chromatin Dynamics”

Thesis title: “Biophysical Characterization of Somatosensory Responses in Drosophila Class IV Dendritic Arborization Neurons”

Thesis title: “Regulation of Trio GEF1 Activity by the Spectrin Repeats and Cellular Factors”

Thesis title: “Image Analysis and Biomechanics for Patient-Specific Mitral Valve Modeling from Transesophageal Echocardiography”

Thesis title: “Exploring the Regulation of Transcriptional Noise in Nf-κB-Inducible Genes Across Chromatin Environments”

Thesis title: “Computational studies of protein structure”

Thesis Title: ““Identifying immunological biomarkers in massive public data”

Thesis title: “Variant interpretation in personal genomes using protein sequences, networks and allele-specific analyses”

Thesis title: “Assembly mechanisms of nuclear bodies”

Thesis title: “Toward Understanding the Mechanism of Charge Transport in Protein Nanowires”

Thesis title: “Using cryo-electron microsopy to study microtubule heterogeneity”

Thesis Title: “Towards understanding microtubule dynamics through an Abl tyrosine kinase”

Thesis title: “Developing new approaches to faster, high-spatial resolution Phosphorus-31 MR imaging of bone”

Thesis title: “Understanding the mechanisms of Arp2/3 complex activation”

Thesis title: “Computational studies of protein structure”

Thesis title: “Investigating the Connection Between Protein Folding, Polymer Collapse and Jamming”

Thesis title: “Connecting indoor fungal communities and human health: Novel insights from DNA-based community profiling and metatranscriptomics”

Thesis title: “Regulation of the enzymes that recycle the universal glycan carrier dictates bacterial outer membrane composition”

Thesis title: “4Pi Single-molecule Switching Nanoscopy for Live-cell Imaging”

Thesis title: “Single-molecule studies of protein folding and interactions using optical tweezers”

Thesis title: “Biochemical and functional characterization of kindlin interactions”

Thesis title: “Single-molecule dynamics in clathrin-mediated endocytosis and membrane remodeling”

Thesis Title: “Inhibitory Regulation of Cognitive functions in Cortical and Thalamic Circuits: Computational Mechanisms and Experimental Predictions”

Thesis title: “Mathematical modeling of cell type evolution: gene expression and gene regulatory networks”

Thesis title: “Designed and developed super-resolution microscopy based on single-molecule switching and single-molecule localization”

Thesis title: “Active actomyosin mechanics: Cooperativity and scaling of contraction in disordered networks”

Thesis title: “From individual to collective behavior: The role of memory and diversity in bacterial navigation”

Thesis title: “Contrast adaptation in Drosophila direction-selective circuits”

Thesis title: “Computational Studies of Proteins: Void analyses, NMR and X-ray structures, Fluctuations in protein structure measured using molecular dynamics simulations”

Thesis title: “Computational Studies of Protein-Protein Interfaces and Docking”

Thesis title: “Conformation and dynamics of the Troponin I C-terminal domain: Combining single-molecule fluorescence and experiments to bridge timescales”

Thesis title: “Design and construction of a recorded organism containing 62 codons”

Thesis title: “The Role of Gene Regulatory Mechanisms in Brain Evolution and Neuropsychiatric Disease”

Thesis title: “Studying gene duplication, divergence, and disablement across the mouse lineage and in the laboratory”

Thesis Title: “Mechanisms and Consequences of Cell-to-Cell Variation in Mutasome Expression”

Thesis title: “The fate of autophagosome from start to finish: How do mammalian ATG8-family and ATG4-family proteins contribue to macroautophagy?”

Thesis title: “The Rheology of Striated Muscles”

Thesis Title: “A Tale of Two Nanowires: The Biochemical and Spectroscopic Characterization of the Conductive Cytochrome OmcS and OmcZ Filaments of Geobacter Sulfurreducens”

Thesis Title: “Reversible peptide-protein interactions inside cells: enabling a new approach for achieving super-resolution imaging in live cells”

Thesis title: “Mechanical properties of the Arp2/3 complex”

Thesis title: “Transcriptional regulation by maternal HP1a is essential for Drosophila embryogenesis”

Thesis title: “Development and implementation of a reversibly-interacting TRAP-peptide pair as a live-cell imaging strategy”

Thesis title: “Molecular Assembly In The Endocytic Pathway”

Thesis title: “Exploring free energy landscapes of SNARE assembly using optical tweezers”

Thesis title: “Targeted Nucleic Acid Delivery to the Endothelium”

Thesis title: “New NMR applications and methods: Discrete time crystalline signatuares and accelerated acquisition using iterated maps”

Thesis title: “Lipid membrane-mediated interactions between bound particles”

Thesis title: “Modular design and selection of phosphospecific tetraticopeptide repeat affinity proteins”

Thesis title: “Energetics of biological mechanics and dynamics”

Thesis Title: “On the role of stability in animal morphology and neural control”

Thesis title: “Electrons on the Move in Proteins: Microbial Cytochrome Nanowires in Extracellular Electron Transfer and as Functional Materials”

Thesis title: “Molecular mechanisms of regulated SNARE assembly revealed by single-molecule force spectroscopy”

Thesis title: “Uncovering Transkingdom Connectivity Through Mapping Host-Microbiota Interactions”

Thesis title: “Geometric data organization: Algorithms and applications”

Thesis title: “Comprehensive discovery of structured noncoding RNAs from individual bacterial genomes”

Thesis title: “Characterizing Photophysics of Photoconvertible-fluorescent Protein mEos3.2 for Quantitative Fluorescence Microscopy”

Thesis title: “Computational Studies of Packing and Jamming in Biological Systems”

Thesis Title: “Morphogenesis of Class IV Neurons in Drosophila melanogaster”

Thesis title: “Geometry and contact mechanics of athermal jammed packings of frictionless spherical and nonspherical particles”

Thesis title: “3D-STED microscopy for deep-tissue applications”

Thesis title: “Predicting side chain dihedral angles of protein cores and beyond: An exploration of the limits of the hard-sphere model”

Thesis title: “Efferent Modulation of Spontaneous Activity in Developing Sensory Systems”

Thesis title: “DNA-Origami-Based Fluorescence Brightness Standards for Convenient and Fast Protein Counting in Live Cells”

Thesis title: “Positional fluctuations in synthetic and living polymer systems”

Thesis title: “Electronic particle manipulation for lab-on-chip diagnostics”

Thesis Title: “Novel methods for optimizing light microscopy and live-cell image analysis”