Mayo, Stephen

Monograph from CaltechTHESIS committee

• Mai, Huanghao (2025) Advancing Structural Analysis with Computational Methods Development; 10.7907/4p95-d385
• Schaus, Lucas Jean Nicolas (2025) Studies on Scaling Throughput in Protein Engineering; 10.7907/jqng-x012
• Muthusamy, Anand Kumar (2024) Neuropsychiatric Drug Biosensors in Organelles, Cells, Biofluids, & Behaving Animals; 10.7907/1043-8k76
• Johnston, Kadina Elizabeth (2024) Acquiring Enzyme Sequence-Fitness Data at Scale Toward Predictive Methods for Enzyme Engineering; 10.7907/xjz4-k217
• Huang, Shan (2023) DNA-Guided Genome Manipulation in Escherichia coli; 10.7907/3yab-jg50
• Breunig, Stephanie Lynne (2023) Incorporation of Non-Canonical Proline Residues into Proteins Expressed in Escherichia coli; 10.7907/8nj2-v152
• Almhjell, Patrick James (2023) Noncanonical Amino Acid Synthesis by Evolved Tryptophan Synthases; 10.7907/rcvq-dg51
• Wittmann, Bruce James (2022) Strategies and Tools for Machine Learning-Assisted Protein Engineering; 10.7907/azzt-0q97
• Aceves, Aiden Joseph (2022) Machine Learning and Modeling Methods for Protein Engineering; 10.7907/5j34-0d55
• Wang, Jingzhou (2021) CDRxAb: Antibody Small-Molecule Conjugates with Computationally Designed Target-Binding Synergy; 10.7907/p0kj-9d56
• Petersen, Philip Fai (2018) Engineering Molecular Self-assembly and Reconfiguration in DNA Nanostructures; 10.7907/7FXP-8402
• Marshall, Stephen Sandell (2018) Improvement of Integral Membrane Protein Expression via Optimization of Simulated Integration Efficiency; 10.7907/Z9Q23XD3
• Fang, Katharine Yan (2017) Modulating Biophysical Properties of Insulin with Non-Canonical Mutagenesis at Position B28; 10.7907/Z9V40S6J
• Lieblich, Seth Aharon (2017) Non-Canonical Amino Acid Mutagenesis of Position B28 In Insulin with Proline Analogs; 10.7907/Z90Z71BD
• Wang, Connie Yuan-Ying (2016) Understanding Co-Translational Protein Targeting and Lithium Dendrite Formation through Free Energy Simulations and Coarse-Grained Models; 10.7907/Z97H1GHF
• Cahn, Jackson Kenai Blender (2016) Engineering, Predicting, and Understanding Nicotinamide Cofactor Specificity; 10.7907/Z9QV3JJ8
• Szablowski, Jerzy Olgierd (2015) Biological Activity of Pyrrole-Imidazole Polyamides in vivo; 10.7907/Z9Q23X6D
• Wannier, Timothy Milton (2015) Computationally Guided Monomerization of Red Fluorescent Proteins of the Class Anthozoa; 10.7907/Z9571908
• Cornejo de los Santos, Emmanuel Lorenzo (2015) Expanding the Toolkit for Synthetic Biology: Frameworks for Native-like Non-natural Gene Circuits; 10.7907/Z9M61H64
• Kirkpatrick, Andrea (2015) Computational Predictions of G Protein-Coupled Receptor Structures and Binding Sites; 10.7907/Z9NG4NJG
• Berry, Alexandria Helen T. (2014) Designing Conformational Control of Human Tissue Transglutaminase; 10.7907/WW1E-VT19
• Kym, Eugene Yongshik (Gene) (2014) Engineered Discoidin Domain from Factor VIII Binds αvβ3 Integrin with Antibody-like Affinity ; 10.7907/PTZH-PB29
• Mou, Yun (2014) Computational Design of Self-Assembling Proteins and Protein-DNA Nanowires; 10.7907/Z9PG1PPV
• Sosa Padilla Araujo, Bernardo (2014) Computational Enzyme Design; 10.7907/Z9KP805N
• Trudeau, Devin Lee (2014) Engineering Enzyme Systems by Recombination; 10.7907/F8T8-3S80
• Lovely, Geoffrey A. (2014) Biophysics of V(D)J Recombination and Genome Packaging: In Singulo Studies on RAG, HMGB1, and TFAM; 10.7907/Z9W9573H
• Chitsaz, Mohsen (2014) Protein Structure Refinement Algorithms; 10.7907/7731-QM74
• Hamdouche, Samy (2014) Engineered Antibody and Monobody Domains with T Cell Receptor-Like Selectivity for Tumor Associated Peptide-MHC Antigens; 10.7907/Z9WH2N02
• Walkup, Ward Gale IV (2014) Biochemical Studies of Postsynaptic Density Signaling Proteins With a Focus on synGAP and PDZ Domains; 10.7907/Z9N877R8
• Lee, Toni Marie (2014) Computationally-Guided Thermostabilization of the Primary Endoglucanase from Hypocrea jerorina for Cellulosic Biofuel Production; 10.7907/Z9S180G0
• Wu, Indira (2013) Engineering Thermostable Fungal Cellobiohydrolases; 10.7907/V80F-X625
• Truong, Frank (2013) Expanding Protein Sequence Space through Incorporation of Non-Canonical Amino Acids; 10.7907/6CXB-2092
• Moore, Matthew Michaels (2013) Applications of Computational Protein Design to Red Fluorescent Proteins; 10.7907/6876-A570
• Nisthal, Alex (2012) Accelerating the Interplay Between Theory and Experiment in Protein Design; 10.7907/Z9833Q2F
• Komor, Russell Scott (2012) Recombinatorial and Predictive Methods to Increase Cellulase Thermostability and Structural Analysis of a Thermostable P450 ; 10.7907/A1ZX-3W42
• Romero, Philip Anthony (2012) Statistical Models of the Protein Fitness Landscape: Applications to Protein Evolution and Engineering; 10.7907/7W9R-Y338
• Bugg, Charles Walter (2011) Domain Organization of Mutant Huntingtin Fibrils; 10.7907/XAYY-9E20
• Lancaster, Kyle Matthew (2011) Outer-Sphere Effects on the Copper Sites of Pseudomonas Aeruginosa Azurins; 10.7907/9HZZ-XE74
• Zadeh, Joseph N. (2010) Algorithms for Nucleic Acid Sequence Design; 10.7907/20DG-NF39
• Pascal, Tod Augustin (2010) New Approaches to Accurate Predictions of Free Energies: From Proteins to Organic Nanostructures; 10.7907/P0JH-QM60
• Luong, Tinh Nghi (2010) Signaling Proteins in the Post-Synaptic Density; 10.7907/GQ1D-CY75
• Zeglis, Brian Matthew (2010) Investigations into the Generality of Metalloinsertion at DNA Defects; 10.7907/0YRQ-3W54
• Allen, Benjamin Daniel (2009) Development and Validation of Optimization Methods for the Design of Protein Sequences and Combinatorial Libraries; 10.7907/SNJJ-0Q88
• Privett, Heidi Kathleen (2009) An Iterative Approach to de novo Computational Enzyme Design and the Successful Application to the Kemp Elimination; 10.7907/1402-XZ32
• Puckett, James William (2009) Microarray and Genome-wide Sequencing Approaches to Characterizing DNA Binding Molecules; 10.7907/E3NT-SC46
• Klein, Joshua Simon (2009) Investigations in the Design and Characterization of HIV-1 Neutralizing Molecules; 10.7907/QPEC-8Y25
• Anderson, Megan Jo (2009) Microfluidics-Based Strategies for Protein Crystallography; 10.7907/P5ZD-0S21
• Hsu, Carey Frank (2009) Completion of a Programmable DNA-Binding Small Molecule Library; 10.7907/PG0R-3X44
• Hawkins, Kristy Michelle (2009) Metabolic Engineering of Saccharomyces cerevisiae for the Production of Bensylisoquinoline Alkaloids; 10.7907/BQF7-QZ35
• Keeffe, Jennifer Rae (2009) Engineering Cyanovirin-N for Enhanced Viral Neutralization; 10.7907/QSJH-5X56
• Vizcarra, Christina Luisa (2008) Development and Evaluation of Protein Design Methods for Functional Targets; 10.7907/G16E-JZ97
• Poon, Yan Shuen (2008) The Characterization and Structure of Mechanosensitive Channels of Small Conductance; 10.7907/EBZ2-5D39
• Nickols, Nicholas George (2008) Endogenous Gene Regulation by DNA Binding Polyamides; 10.7907/YH4W-4H67
• Stafford, Ryan Leonard (2008) Design of Protein-DNA Dimerizers; 10.7907/PF5M-KF68
• Alvizo, Oscar (2007) Computational Protein Design Force Field Optimization: A Negative Design Approach; 10.7907/NYVY-7Z76
• Lassila, Jonathan Kyle (2007) Methods for Computational Enzyme Design and Application to the Chorismate-Prephenate Rearrangement; 10.7907/4xm1-h147
• Bloom, Jesse D. (2007) Hidden Dimensions in Protein Evolution: Stability, Mutational Robustness, and Evolvability; 10.7907/3MNT-7W93
• Austin, Ryan James (2007) Solving Molecular Recognition Problems with Evolvable Peptide Motifs; 10.7907/H8BY-M951
• Mao, Jessica (2006) Applications of Computational Protein Design; 10.7907/13A4-Z652
• Zollars, Eric Stafford (2006) Force Field Development in Protein Design; 10.7907/55br-9a21
• Choi, Eun Jung (2006) Development and Applications of Computational Protein Design; 10.7907/ZNED-BV38
• Meyer, Michelle Margaret (2006) Exploring Protein Sequence Space Using Computationally Directed Recombination; 10.7907/YJPE-CD11
• Ceres, Donato Marino (2006) Electron Transfer at DNA-Modified Electrodes; 10.7907/vdyv-zf71
• Link, Aaron James (2006) Azide-Bearing Amino Acids in Protein Engineering and Proteomic Profiling; 10.7907/XXA2-5K11
• Marcus, Joshua Scott (2006) Single Mammalian Cell Gene Expression Analysis Using Microfluidics; 10.7907/M3GA-PT31
• Hart, Jonathan Ross (2006) Synthesis and Applications of Bulky Rhodium(III) Intercalators for the Recognition of DNA Mismatches; 10.7907/sh3b-2f25
• Marques, Michael Anthony (2005) The Molecular Recognition of DNA by Novel Heterocycles; 10.7907/GHEJ-A648
• Sarisky, Catherine Ann (2005) Exploration of the Determinants of Protein Structure and Stability by Protein Design; 10.7907/RBSA-R089
• Shah, Premal S. (2005) Advances in Force Field Development and Sequence Optimization Methods for Computational Protein Design; 10.7907/mg9x-s593
• 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
• Takahashi, Terry Torao (2005) In Vitro Selection of RNA Binding Peptides; 10.7907/9X0X-PG47
• Qi, Xin (2005) Unnatural Amino Acid Incorporation to Rewrite the Genetic Code and RNA-Peptide Interactions; 10.7907/YNYY-KE32
• Poulin-Kerstien, Adam Thomas (2005) DNA-Templated Dimerizations of Minor Groove-Binding Polyamides; 10.7907/em7t-g660
• Bhattacharya, Pratip K. (2004) Structure and Reactivity of Metal Complexes Bound to DNA; 10.7907/ZANY-J082
• Huang, Po-Ssu (2004) Computational Design and Experimental Characterization of Protein Oligomers; 10.7907/3DZW-2R54
• Wang, Pin (2004) Expanding the Biosynthetic Capacity of the Aminoacyl-tRNA Synthetases; 10.7907/99W6-8F08
• Voigt, Christopher Ashby (2003) Computationally Optimizing the Directed Evolution of Proteins; 10.7907/E4GF-EQ41
• Datta, Deepshikha (2003) Protein-Ligand Interactions: Docking, Design and Conformation Change; 10.7907/36FS-2262
• Li, Shuwei (2003) In Vitro Selection of mRNA-Display Libraries Containing Unnatural Amino Acids; 10.7907/NVCQ-JS95
• Voigt, Christopher Ashby (2003) Computationally Optimizing the Directed Evolution of Proteins; 10.7907/E4GF-EQ41
• Wurtz, Nicholas Roland (2002) Sequence Specific Alkylation of DNA by Polyamide-Chlorambucil Conjugates; 10.7907/59jz-2e47
• Nguyen Hackley, Doan Hanh (2002) Allosteric Inhibition of Zinc Finger Proteins by DNA Binding Polyamides; 10.7907/NJ2K-H827
• Hamburger, Zsuzsa Andrea (2002) Crystallographic Studies of Invasin, a Bacterial Adhesion Molecule from Yersinia pseudotuberculosis; 10.7907/NKAY-AB98
• Strop, Pavel (2002) Characterization of the Mechanosensitive Channel of Large Conductance; 10.7907/nkqb-gd95
• Lee, Jennifer Chen (2002) Mapping Heme Protein Folding Landscapes; 10.7907/DCQ1-F958
• Bolon, Daniel N. (2002) Computational Enzyme Design; 10.7907/W7F3-DS14
• Lee, Jennifer Chen (2002) Mapping Heme Protein Folding Landscapes; 10.7907/DCQ1-F958
• Urbach, Adam Robert (2002) 1:1 Motif for DNA Recognition by β-Alanine Linked Polyamides; 10.7907/V6FD-YQ78
• Urbach, Adam Robert (2002) 1:1 Motif for DNA Recognition by β-Alanine Linked Polyamides; 10.7907/V6FD-YQ78
• Bolon, Daniel N. (2002) Computational Enzyme Design; 10.7907/W7F3-DS14
• Liu, Yang (2001) Molecular Mechanism of Sulfated Carbohydrate Recognition: Structural and Biochemical Studies of the Cysteine-Rich Domain of Mannose Receptor; 10.7907/fj0v-hx76
• Herman, David Matthew (2001) Stereochemically Modified Polyamides for Recognition in the Minor Groove of DNA; 10.7907/vsf2-fe75
• Morgan, Chantal Smith (2000) Full Sequence Design of an Alpha-Helical Protein and Investigation of the Importance of Helix Dipole and Capping Effects in Helical Protein Design; 10.7907/8wn3-cv27
• Dahiyat, Bassil I. (1998) Protein design automation : principles and practice; 10.7907/08j5-w532