Pierce, Niles

Combined from CaltechTHESIS committee

• Davidson, Samuel Ryan (2025) Localized Catalytic DNA Circuits for Integrated Information Processing in Molecular Machines; 10.7907/831v-vq95
• Pandey, Ayush (2024) Modeling Frameworks for Modular and Scalable Biological Circuit Design; 10.7907/qacp-dw76
• Schulte, Samuel Jordan (2023) New HCR Technologies: 10-Plex Quantitative Spectral Imaging of RNAs and Proteins; Multiplexed Quantitative Imaging of Protein:Protein Complexes; and Sensitive, Instrument-Free, At-Home Pathogen Detection; 10.7907/nzk8-2d38
• Chen, Zhewei (2023) Engineering Conditional Guide RNAs for Cell-Selective Regulation of CRISPR/Cas9; 10.7907/cajs-d417
• Huang, Jining (2023) Applications of Dynamic Nucleic Acid Nanotechnology in Closed-Loop Genetic Circuits and Detection of Viral Pathogens; 10.7907/54tw-ym95
• Savela, Emily Sue (2022) Nucleic Acid Measurements for Antibiotic Susceptibility Testing and Early Detection of SARS-CoV-2; 10.7907/vp9a-n206
• Hoffmann, Magnus Adrian Gero (2022) Nanoparticle Technologies to Cure and Prevent Infectious Diseases; 10.7907/g0w1-rc77
• Ortiz-Muñoz, Andrés (2022) Combinatorics and Stochasticity for Chemical Reaction Networks; 10.7907/s9mc-3d59
• Shur, Andrey Sergeyvich (2022) Serine Integrase-Based Event Recording in E. coli; 10.7907/x4q0-nx18
• Fornace, Mark Evan (2022) Computational Methods for Simulating and Parameterizing Nucleic Acid Secondary Structure Thermodynamics and Kinetics; 10.7907/ayeg-at42
• Cheng, Lixue (2022) Accurate and Transferable Molecular-Orbital-Based Machine Learning for Molecular Modeling; 10.7907/cjak-4x38
• McCardell, Reed Dillard (2021) Genetic Circuits for the Control of Multi-Strain Bacterial Populations; 10.7907/wgpp-vj97
• Ren, Xinying (Cindy) (2021) Principles for Designing Robust and Stable Synthetic Microbial Consortia; 10.7907/hc8x-3280
• Johnson, Robert Francis (2020) Formal Design and Analysis for DNA Implementations of Chemical Reaction Networks; 10.7907/a74v-kv80
• Hanewich-Hollatz, Mikhail Henning (2020) Conditional Guide RNAs: Programmable Conditional Regulation of CRISPR/Cas Function via Dynamic RNA Nanotechnology; 10.7907/NS2B-DJ96
• Porubsky, Nicholas James (2020) Enhanced Algorithms for Analysis and Design of Nucleic Acid Reaction Pathways; 10.7907/M8CZ-MW98
• Burke, Kelly Suzanne (2018) Visualizing mRNA Translation in situ in Single Cells; 10.7907/Z92B8W6R
• Baetica, Ania-Ariadna (2018) Design, Analysis, And Computational Methods For Engineering Synthetic Biological Networks; 10.7907/98qt-zv92
• Acharya, Aneesh (2016) Multiplexed Analysis of Diverse RNA Classes via Hybridization Chain Reaction; 10.7907/Z95M63N0
• Husain, Naeem Shahab (2016) Mapping mRNA and Protein Expression with High Signal-to-Background in Diverse Organisms; 10.7907/Z9DF6P73
• Hsiao, Victoria (2016) Synthetic Circuits for Feedback and Detection in Bacteria; 10.7907/Z9WD3XJW
• Srinivas, Niranjan (2015) Programming Chemical Kinetics: Engineering Dynamic Reaction Networks with DNA Strand Displacement; 10.7907/Z9KD1VVJ
• Trivedi, Vikas (2015) From Molecules to Organs : Microscopy and Multi-Scale Nature of Development; 10.7907/Z9SX6B59
• Wannier, Timothy Milton (2015) Computationally Guided Monomerization of Red Fluorescent Proteins of the Class Anthozoa; 10.7907/Z9571908
• Sun, Bing (2014) Mechanistic Studies of Reactions at the Single-Molecule Level using Microfluidics with Applications in Molecular Diagnostics; 10.7907/BT81-YX06
• Wolfe, Brian Robert (2014) Design and Analysis of Nucleic Acid Reaction Pathways; 10.7907/G4XZ-ZF47
• Evans, Constantine Glen (2014) Crystals that Count! Physical Principles and Experimental Investigations of DNA Tile Self-Assembly; 10.7907/7FMK-9403
• Hamdouche, Samy (2014) Engineered Antibody and Monobody Domains with T Cell Receptor-Like Selectivity for Tumor Associated Peptide-MHC Antigens; 10.7907/Z9WH2N02
• Pahlevan, Niema Mohammed (2013) A Systems Approach to Cardiovascular Health and Disease with a Focus on Aortic Wave Dynamics; 10.7907/Z9DR2SFM
• Schwarzkopf, Ma'ayan (2013) Engineering Nucleic Acid Mechanisms for Regulation and Readout of Gene Expression: Conditional Dicer Substrate Formation and Sensitive Multiplexed Northern Blots; 10.7907/Z94Q7S0V
• Woo, Sungwook (2013) Beyond Watson and Crick: Programming the Self-Assembly and Reconfiguration of DNA Nanostructures Based on Stacking Interactions; 10.7907/4NZK-XK58
• Hochrein, Lisa Marie (2013) Towards Conditional RNAi : Shape and Sequence Transduction with Small Conditional RNAs; 10.7907/NTZT-8Q67
• Sternberg, Jonathan Ben-Zion (2013) Signal Transduction with Hybridization Chain Reactions; 10.7907/Z90Z719Z
• Schaeffer, Joseph Malcolm (2013) Stochastic Simulation of the Kinetics of Multiple Interacting Nucleic Acid Strands; 10.7907/JEBY-6X69
• Dabby, Nadine L. (2013) Synthetic Molecular Machines for Active Self-Assembly: Prototype Algorithms, Designs, and Experimental Study; 10.7907/T0ZG-PA07
• Johnson, Stephanie Lynn (2012) DNA Mechanics and Transcriptional Regulation in the E. coli lac Operon; 10.7907/W40T-PD39
• Zhang, David Yu (2010) Dynamic DNA Strand Displacement Circuits; 10.7907/Q4NR-CH87
• Wu, David Dah-wei (2010) Biomechanical Information Transfer: Maximum Caliber, λ Genome Ejection Dynamics, and the Formation of Otoliths in Zebrafish; 10.7907/X454-MV52
• Choi, Harry Ming Tak (2010) Programmable In Situ Amplification for Multiplexed Bioimaging ; 10.7907/K4A3-1K41
• Zadeh, Joseph N. (2010) Algorithms for Nucleic Acid Sequence Design; 10.7907/20DG-NF39
• Othmer, Jonathan Andrew (2009) Algorithms for Mapping Nucleic Acid Free Energy Landscapes; 10.7907/VJX1-6376
• Lyon, Mark Edward (2009) High-Order Unconditionally-Stable FC-AD PDE Solvers for General Domains; 10.7907/3FFW-GK56
• Beisel, Chase Lawrence (2009) Engineering Ligand Control of RNA Interference; 10.7907/CBRX-PG36
• McHale, Kevin L. (2008) Feedback Tracking and Correlation Spectroscopy of Fluorescent Nanoparticles and Biomolecules; 10.7907/6YYA-9T10
• Monro, John Anderson (2008) A Super-Algebraically Convergent, Windowing-Based Approach to the Evaluation of Scattering from Periodic Rough Surfaces; 10.7907/F9VM-JP39
• Bois, Justin S. (2007) Analysis of Interacting Nucleic Acids in Dilute Solutions; 10.7907/2JCJ-SX75
• Latini, Marco (2007) Simulations and Analysis of Two- and Three-Dimensional Single-Mode Richtmyer-Meshkov Instability using Weighted Essentially Non-Oscillatory and Vortex Methods; 10.7907/1397-GZ04
• Alvizo, Oscar (2007) Computational Protein Design Force Field Optimization: A Negative Design Approach; 10.7907/NYVY-7Z76
• Zollars, Eric Stafford (2006) Force Field Development in Protein Design; 10.7907/55br-9a21
• Forster, Robert Burke (2006) Population Dynamics in the Presence of Quasispecies Effects and Changing Environments; 10.7907/QHEA-NV73
• Strinopoulos, Theofilos (2006) Upscaling Immiscible Two-Phase Flows in an Adaptive Frame; 10.7907/AP0P-8S11
• Spakowitz, Andrew James (2005) Semiflexible Polymers: Fundamental Theory and Applications in DNA Packaging; 10.7907/GGY2-SZ67
• Stredie, Valentin Gabriel (2005) Mathematical Modeling and Simulation of Aquatic and Aerial Animal Locomotion; 10.7907/8PWE-RK28
• Stredie, Valentin Gabriel (2005) Mathematical Modeling and Simulation of Aquatic and Aerial Animal Locomotion; 10.7907/8PWE-RK28
• Shah, Premal S. (2005) Advances in Force Field Development and Sequence Optimization Methods for Computational Protein Design; 10.7907/mg9x-s593
• Westhead, Andrew Neil (2005) Upscaling for Two-Phase Flows in Porous Media; 10.7907/T7Q0-FG76
• Dirks, Robert Michael (2005) Analysis, Design, and Construction of Nucleic Acid Devices; 10.7907/VZ43-FM66
• Endelman, Jeffrey B. (2005) Design and Analysis of Combinatorial Protein Libraries Created by Site-Directed Recombination; 10.7907/GF35-Q269
• Hom, Geoffrey Kai Tong (2005) Advances in Computational Protein Design: Development of More Efficient Search Algorithms and their Application to the Full-Sequence Design of Larger Proteins; 10.7907/M4R9-YM51
• Chaubell, Mario Julián (2004) Low-Coherence Interferometric Imaging: Solution of the One-Dimensional Inverse Scattering Problem; 10.7907/ED7Y-Q436
• Hyde, Edward McKay (2003) Fast, High-Order Methods for Scattering by Inhomogeneous Media; 10.7907/Z0V0-KM52
• Kastner, Jason Christopher (2003) Modeling a Hox Gene Network: Stochastic Simulation with Experimental Perturbation; 10.7907/2TWD-EK72
• Greenberg, Andrei Yakovlevich (2003) Chebyshev Spectral Method for Singular Moving Boundary Problems with Application to Finance; 10.7907/J383-YX41
• Fetecau, Razvan Constantin (2003) Variational Methods for Nonsmooth Mechanics; 10.7907/VXBJ-R447
• Ginis, Roman (2002) Automating Resource Management for Distributed Business Processes; 10.7907/9GXT-BD03
• Feldmann, Michael Todd (2002) Quantum Monte Carlo: Quest to Get Bigger, Faster, and Cheaper; 10.7907/4D4F-WZ34
• Ginis, Roman (2002) Automating Resource Management for Distributed Business Processes; 10.7907/9GXT-BD03
• Craciun, Bogdan (2002) Phase Boundary Propagation in Heterogeneous Media; 10.7907/JXG6-W865
• Feldmann, Michael Todd (2002) Quantum Monte Carlo: Quest to Get Bigger, Faster, and Cheaper; 10.7907/4D4F-WZ34
• Craciun, Bogdan (2002) Phase Boundary Propagation in Heterogeneous Media; 10.7907/JXG6-W865