<h1>Thomson, Matt</h1> <h2>Monograph from <a href="https://data.caltech.edu">CaltechTHESIS committee</a></h2> <ul> <li>Schaus, Lucas Jean Nicolas (2025) <a href="https://resolver.caltech.edu/CaltechTHESIS:08022024-005547280">Studies on Scaling Throughput in Protein Engineering</a>; <a href="https://doi.org/10.7907/jqng-x012">10.7907/jqng-x012</a></li> <li>Chen, Xiaoqiao (2025) <a href="https://resolver.caltech.edu/CaltechTHESIS:07052024-170119371">Active Acquisition Methods for Single Cell Genomics</a>; <a href="https://doi.org/10.7907/nsn8-nd79">10.7907/nsn8-nd79</a></li> <li>Wang, Zitong (Jerry) (2025) <a href="https://resolver.caltech.edu/CaltechTHESIS:06152024-132652470">Theoretical and Computational Analysis of Cell Migration in Complex Tissue Environments</a>; <a href="https://doi.org/10.7907/mj08-b258">10.7907/mj08-b258</a></li> <li>Viloria Winnett, Alexander (2025) <a href="https://resolver.caltech.edu/CaltechTHESIS:12092024-223834150">Quantitative Nucleic Acid Measurements Inform Strategies to Mitigate Viral Outbreaks</a>; <a href="https://doi.org/10.7907/qe3a-a670">10.7907/qe3a-a670</a></li> <li>Jiang, Jialong (2024) <a href="https://resolver.caltech.edu/CaltechTHESIS:06032024-182223499">Revealing Regulatory Network Organization Through Single-Cell Perturbation Profiling and Maximum Entropy Models</a>; <a href="https://doi.org/10.7907/5zta-9818">10.7907/5zta-9818</a></li> <li>Bhamidipati, Pranav Subramanyam (2024) <a href="https://resolver.caltech.edu/CaltechTHESIS:06012024-054725051">Modeling and Design of Synthetic Biochemical Circuits for Biological Phenotypes</a>; <a href="https://doi.org/10.7907/gpc6-hb40">10.7907/gpc6-hb40</a></li> <li>Schwartz, Morgan Sarah (2024) <a href="https://resolver.caltech.edu/CaltechTHESIS:05282024-221603734">Accelerating Biological Discovery with Deep Learning and Spatial Optical Barcodes</a>; <a href="https://doi.org/10.7907/55c7-8142">10.7907/55c7-8142</a></li> <li>Saladi, Shyam Madhukar (2024) <a href="https://resolver.caltech.edu/CaltechTHESIS:10232023-184021847">Some Computer Studies of Membrane Proteins, Molecular Chaperones, and Color</a>; <a href="https://doi.org/10.7907/40cw-kn70">10.7907/40cw-kn70</a></li> <li>Bernstein, Jeremy David (2023) <a href="https://resolver.caltech.edu/CaltechTHESIS:10132022-000100592">Optimisation & Generalisation in Networks of Neurons</a>; <a href="https://doi.org/10.7907/1jz8-5t85">10.7907/1jz8-5t85</a></li> <li>Hirokawa, Soichi (2023) <a href="https://resolver.caltech.edu/CaltechTHESIS:08252022-153300158">Dynamics of Protein-Mediated Polymer Coupling and their Implications in Antibody Production and Emergent Patterning</a>; <a href="https://doi.org/10.7907/fpmm-a552">10.7907/fpmm-a552</a></li> <li>Zhu, Ronghui (2023) <a href="https://resolver.caltech.edu/CaltechTHESIS:07252022-061122576">Multicellular Circuit Design in Mammalian Cells</a>; <a href="https://doi.org/10.7907/p0fn-qa56">10.7907/p0fn-qa56</a></li> <li>Gálvez Merchán, Ángel (2023) <a href="https://resolver.caltech.edu/CaltechTHESIS:06042023-195408313">Studies of mRNA Expression and Degradation</a>; <a href="https://doi.org/10.7907/esxk-ch24">10.7907/esxk-ch24</a></li> <li>Raghavan, Guruprasad (2023) <a href="https://resolver.caltech.edu/CaltechTHESIS:03172023-050019811">Engineering Artificial Systems with Natural Intelligence</a>; <a href="https://doi.org/10.7907/374f-1202">10.7907/374f-1202</a></li> <li>Ma, Yitong (2023) <a href="https://resolver.caltech.edu/CaltechTHESIS:04132023-015900885">Multicellular Synthetic Biology in Mammalian Systems</a>; <a href="https://doi.org/10.7907/w0q1-7s17">10.7907/w0q1-7s17</a></li> <li>Jorgensen, Victoria Lynn (2023) <a href="https://resolver.caltech.edu/CaltechTHESIS:06112023-211027828">Stem Cell-Derived Embryo Models in Mouse and Human to Illuminate the “Black Box” of Pre- to Post-Implantation Development</a>; <a href="https://doi.org/10.7907/t1fe-3915">10.7907/t1fe-3915</a></li> <li>Kuintzle, Rachael Christine (2023) <a href="https://resolver.caltech.edu/CaltechTHESIS:05302023-215054202">Diversity in Notch Ligand-Receptor Signaling Interactions</a>; <a href="https://doi.org/10.7907/w8gj-jb92">10.7907/w8gj-jb92</a></li> <li>Moses, Lambda (2023) <a href="https://resolver.caltech.edu/CaltechTHESIS:05312023-213322223">Computation Foundations of Spatial Transcriptomics</a>; <a href="https://doi.org/10.7907/rt24-pq60">10.7907/rt24-pq60</a></li> <li>Galstyan, Vahe (2022) <a href="https://resolver.caltech.edu/CaltechTHESIS:08242021-212959886">Studies in Physical Biology: Exploring Allosteric Regulation, Enzymatic Error Correction, and Cytoskeletal Self-Organization Using Theory and Modeling</a>; <a href="https://doi.org/10.7907/1fzr-1240">10.7907/1fzr-1240</a></li> <li>da Veiga Beltrame, Eduardo (2022) <a href="https://resolver.caltech.edu/CaltechTHESIS:06022022-201232129">Stories in Single Cell RNA Sequencing</a>; <a href="https://doi.org/10.7907/4kgh-8420">10.7907/4kgh-8420</a></li> <li>Dobreva, Tatyana (2022) <a href="https://resolver.caltech.edu/CaltechTHESIS:10172021-215439860">Engineering Tools to Probe and Manipulate the Immune System at Single-Cell Resolution</a>; <a href="https://doi.org/10.7907/n3rs-ft69">10.7907/n3rs-ft69</a></li> <li>Barlow, Jacob T. (2022) <a href="https://resolver.caltech.edu/CaltechTHESIS:10282021-191743624">Quantitative Sequencing and its Application to Studies of the Human Small-Intestine Microbiota</a>; <a href="https://doi.org/10.7907/ca28-fk21">10.7907/ca28-fk21</a></li> <li>Poole, William (2022) <a href="https://resolver.caltech.edu/CaltechTHESIS:11102021-210013472">Compilation and Inference with Chemical Reaction Networks</a>; <a href="https://doi.org/10.7907/x3qc-je74">10.7907/x3qc-je74</a></li> <li>Beeler, Suzannah Michelle (2022) <a href="https://resolver.caltech.edu/CaltechTHESIS:08182021-053622635">Deciphering Regulation in Escherichia coli: From Genes to Genomes</a>; <a href="https://doi.org/10.7907/p3rg-m937">10.7907/p3rg-m937</a></li> <li>Razo-Mejia, Manuel (2022) <a href="https://resolver.caltech.edu/CaltechTHESIS:08242021-212609828">Physical Biology of Cellular Information Processing</a>; <a href="https://doi.org/10.7907/kpc2-b345">10.7907/kpc2-b345</a></li> <li>Tang, Weiyi (2022) <a href="https://resolver.caltech.edu/CaltechTHESIS:04162022-233242577">Retroviral Lineage Analysis of the Vagal Neural Crest Reveals Multipotency Towards the Cardiac and Enteric Fates</a>; <a href="https://doi.org/10.7907/qakz-vm04">10.7907/qakz-vm04</a></li> <li>Banks, Rachel A. (2022) <a href="https://resolver.caltech.edu/CaltechTHESIS:11282021-042001335">Experimental and Theoretical Studies of Non-Equilibrium Systems: Motor-Microtubule Assemblies and the Human-Earth System</a>; <a href="https://doi.org/10.7907/5ee6-j454">10.7907/5ee6-j454</a></li> <li>Brown, David (2022) <a href="https://resolver.caltech.edu/CaltechTHESIS:02132022-064810187">Principles of Massively Parallel Sequencing for Engineering and Characterizing Gene Delivery</a>; <a href="https://doi.org/10.7907/yqjm-6609">10.7907/yqjm-6609</a></li> <li>Row, Hyeongjoo (2022) <a href="https://resolver.caltech.edu/CaltechTHESIS:05252022-172145394">Mechanical Approach to Active Matter: Reverse Osmotic Effect and Motility-Induced Phase Separation</a>; <a href="https://doi.org/10.7907/qef0-e420">10.7907/qef0-e420</a></li> <li>Abdel-Haq, Reem (2022) <a href="https://resolver.caltech.edu/CaltechTHESIS:03162022-173632582">Gut Microbiome Modulates Microglia Physiology in Homeostatic and Disease States</a>; <a href="https://doi.org/10.7907/ht1j-2461">10.7907/ht1j-2461</a></li> <li>Su, Christina Janet (2022) <a href="https://resolver.caltech.edu/CaltechTHESIS:06022022-032024376">Principles of Addressing Specificity in Promiscuous Ligand-Receptor Systems</a>; <a href="https://doi.org/10.7907/z7dv-m192">10.7907/z7dv-m192</a></li> <li>Eng, Chee Huat (Linus) (2021) <a href="https://resolver.caltech.edu/CaltechTHESIS:05302021-051953086">Plus Ultra: Genome-Wide Spatial Transcriptomics with RNA seqFISH+</a>; <a href="https://doi.org/10.7907/nvfe-5j74">10.7907/nvfe-5j74</a></li> <li>Parkin, James Michael (2021) <a href="https://resolver.caltech.edu/CaltechTHESIS:03262021-160841703">Signal Amplification in Synthetic Bacterial Communication</a>; <a href="https://doi.org/10.7907/50p8-bd89">10.7907/50p8-bd89</a></li> <li>Chour, William (2021) <a href="https://resolver.caltech.edu/CaltechTHESIS:02192021-010538691">Molecular Technologies for Antigen-Based Immunity</a>; <a href="https://doi.org/10.7907/z20t-nq62">10.7907/z20t-nq62</a></li> <li>Gandhi, Shashank (2021) <a href="https://resolver.caltech.edu/CaltechTHESIS:06012021-203020365">Molecular Mechanisms Underlying Cardiac Neural Crest Development in Avian Embryos</a>; <a href="https://doi.org/10.7907/y1e4-d090">10.7907/y1e4-d090</a></li> <li>Ross, Tyler David (2021) <a href="https://resolver.caltech.edu/CaltechTHESIS:07082020-113341068">Guiding Self-Organization in Active Matter with Spatiotemporal Boundary Conditions</a>; <a href="https://doi.org/10.7907/q85h-j730">10.7907/q85h-j730</a></li> <li>Quintero Cadena, Porfirio (2021) <a href="https://resolver.caltech.edu/CaltechTHESIS:07072020-154545363">Mechanism and Scaling of Eukaryotic Transcription Activation</a>; <a href="https://doi.org/10.7907/m21w-8461">10.7907/m21w-8461</a></li> <li>Morrison, Muir (2021) <a href="https://resolver.caltech.edu/CaltechTHESIS:06082021-005042886">Statistical Mechanics of Problems in Transcription Regulation</a>; <a href="https://doi.org/10.7907/d042-rp26">10.7907/d042-rp26</a></li> <li>Neumann, Adam Patrick (2020) <a href="https://resolver.caltech.edu/CaltechTHESIS:05182020-141933604">Towards Single Molecule Imaging Using Nanoelectromechanical Systems</a>; <a href="https://doi.org/10.7907/n4ap-7h91">10.7907/n4ap-7h91</a></li> <li>Kim, Dong-Wook (2020) <a href="https://resolver.caltech.edu/CaltechTHESIS:12162019-183140887">Multimodal Analysis of Cell Types in a Hypothalamic Node Controlling Social Behavior in Mice</a>; <a href="https://doi.org/10.7907/RGVK-9962">10.7907/RGVK-9962</a></li> <li>Angeles-Albores, David (2019) <a href="https://resolver.caltech.edu/CaltechTHESIS:10232018-150005837">A Theory of Genetic Analysis Using Transcriptomic Phenotypes</a>; <a href="https://doi.org/10.7907/JRNS-NS05">10.7907/JRNS-NS05</a></li> </ul>