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List of results

• Evaluation Metrics of Object Detection for Quantitative System-Level Analysis of Autonomous Systems  + (2023b)
• A Model-Free Algorithm for Extremely Resilient Navigation  + (2023c)
• A 65nm CMOS Living-Cell Dynamic Fluorescence Sensor with 1.05fA Sensitivity at 600/700nm Wavelengths  + (2023c)
• Control education for societal-scale challenges: A community roadmap  + (2023c)
• Metabolic perturbations to an E. coli-based cell-free system reveal a trade-off between transcription and translation  + (2023c)
• Addressable and adaptable intercellular communication via DNA messaging  + (2023d)
• Development of cell-free transcription-translation systems in three soil Pseudomonads  + (2023f)
• Pacti: Scaling Assume-Guarantee Reasoning for System Analysis and Design  + (2023h)
• A chemical reaction network model of PURE  + (2023h)
• Efficient local validation of partially ordered models via Baysian directed sampling  + (2023i)
• Engineering the soil bacterium Pseudomonas synxantha 2-79 into a ratiometric bioreporter for phosphorus limitation  + (2023j)
• TRILL: Orchestrating Modular Deep-Learning Workflows for Democratized, Scalable Protein Analysis and Engineering  + (2023k)
• Optimizing protein expression in the One-Pot PURE system: Insights into reaction composition and translation efficiency  + (2024a)
• A Field-Deployable Arsenic Sensor Integrating Bacillus Megaterium with CMOS Technology  + (2024b)
• Specifying and Analyzing Networked and Layered Control Systems Operating on Multiple Clocks  + (2024c)
• Impact of Chemical Dynamics of Commercial PURE Systems on Malachite Green Aptamer Fluorescence  + (2024d)
• Flow-Based Synthesis of Reactive Tests for Discrete Decision-Making Systems with Temporal Logic Specifications  + (2024e)
• Theory-Based Engineering of Biomolecular Circuits in Living Cells  + (AFOSR BRI)
• Rules of Composition in Synthetic Biology Across Scales of Complexity: Theory and Tools  + (AFOSR Syn Bio MURI)
• Formal Methods for V&V and T&E of Autonomous Systems  + (AFOSR T&E)
• Layered T&E for Safety-Critical Autonomous Systems  + (AFOSR T&E2)
• Field-Programmable, Recombinase-Based Biomolecular Circuits  + (AICB MRSB)
• Engineering Durable Cell-Free Biological Capabilities for Advanced Sensing and Prototyping  + (ARL cellfree)
• Enabling Technologies for Cell-Silicon Interfacing  + (ARL19 hybrid)
• Fundamental Biological Factors Underlying Human Performance: From Molecular Diagnostics and Detection to Behavior and Systems Biology  + (ARL19 zebrafish)
• Center for Harnessing Microbiota from Military Environments (CHARMME)  + (ARO CHARMME)
• Dissecting microbiome-gut-brain circuits for microbial modulation of host cognition in response to diet and stress  + (ARO GMB)
• Biomolecular Circuits for Rapid Detection and Response to Environmental Events  + (ARO ICB)
• Cell-Free Expression of Membrane Proteins with Applications to Drug Discovery  + (Amgen TX-TL)
• Deciphering the Rules of Nucleus Architecture with Synthetic Cells and Organelles  + (BBSRC SynNucleus)

• Correct-by-Construction Synthesis of Control Protocols for Aerospace Systems  + (Boeing)

• Improvement of E. coli transcription-translation (TX-TL) system  + (Caltech Grubstake)
• Assurance for Learning Enabled Systems  + (DARPA ALES)
• Robust Multi-Layer Control Systems for Cooperative Cellular Behaviors  + (DARPA BioCon)
• Temporal Logic Specifications for Control System Design in Automotive Systems  + (DENSO CPM)
• Programmable Molecular Technology Initiative  + (GBMF PMTI)
• Establishing microfluidic cell-free systems for the rapid prototyping of synthetic genetic networks  + (HFSP TX-TL)
• Design of Digitally Controlled Bacterial Circuits for Bioenabled Materials  + (ICB Materials)
• Genetic Circuits for Multi-Cellular Machines  + (ICB Microbial)
• Engineering Reliable Genetic Circuits for Characterization and Remediation of Soil Ecologies  + (ICB Soil Syn Bio)
• Control of Functional Bioenabled Materials using Synthetic Cells  + (ICB Synthetic Biofilms)
• Design and Implementation of Multi-Component Synthetic Cells  + (ICB Synthetic Cell)
• Multi-Layer, Composable and Programmable Biomolecular Circuits for Microbial Consortia  + (ICB multilayer)
• Synthesizing flight software (FSW) discrete controllers from formal specifications  + (JPL CIF17)
• Safety-Critical Autonomy and Verification for Space Missions  + (JPL PDF17)
• Resilient Risk-Aware Autonomy for the Exploration of Uncertain and Extreme Environments  + (KISS RSS)
• A Brain Circuit Program for Understanding the Sensorimotor Basis of Behavior  + (NIH U19)
• Developing Standardized Cell-Free Platforms for Rapid Prototyping of Synthetic Biology Circuits and Pathways  + (NSF Cell Free)
• Actuation of Synthetic Cells Via Proto-Flagellar Motors  + (NSF EAGER)
• Molecular Programming Project  + (NSF MPP)
• Molecular Programming Architectures, Abstractions, Algorithms, and Applications  + (NSF MPP2)
• Safety-Critical Cyber-Physical Systems: From Validation & Verification to Test & Evaluation  + (NSF T&E)
• VeHICaL: Verified Human Interfaces, Control, and Learning for Semi-Autonomous Systems  + (NSF VehiCaL)
• Model-guided Discovery and Optimization of Cell-based Sensors  + (ONR MURI)
• An Open Synthetic Biology Toolkit for Engineering Reliable Genetic Circuits in Microbes in Soil  + (RSI Soil Syn Bio)
• Engineering Replication-, Growth-, and Division-Deficient E. coli for Safe, Stable and Efficient Function  + (Rosen Simple Cell)
• The TerraSwarm Research Center  + (SRC TerraSwarm)
• Upscaling Engineering of Synthetic Biomachines  + (Schmidt SynCell)
• Developer Cell: A modular, extensible chassis for building synthetic cells  + (Sloan SynCell)
• Rapid, Reliable and Repeatable Platforms for Cell-Free Prototyping  + (Synvitrobio SBIR)