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Combined display of all available logs of Murray Wiki. You can narrow down the view by selecting a log type, the username (case-sensitive), or the affected page (also case-sensitive).

• 05:30, 1 April 2024 Murray talk contribs created page Template:Cds110 sp2024 pdf (Created page with "[[http:www.cds.caltech.edu/~murray/courses/cds110/sp2024/{{{1}}}|{{{2|{{{1}}}}}}]]")
• 20:37, 26 March 2024 User account Dgarciac talk contribs was created automatically
• 21:41, 25 March 2024 User account Philippe talk contribs was created automatically
• 17:02, 10 March 2024 Murray talk contribs created page Group Schedule, Spring 2024 (Created page with "his page contains information about various upcoming events that are of interest to the group. __NOTOC__ {| width=60% |- valign=top | width=50% | * Richard's calendar | width=50% | * Group Schedule, Winter 2024 |} The schedule for group and subgroup meetings is given below. Contact Richard if you need to change the schedule. Unless otherwise noted, biocircuits meetings are in 111 Keck and NCS meetings are in 110...")
• 06:12, 9 March 2024 Murray talk contribs moved page CDS 110/ChE 130, Spring 2024 to CDS 110/ChE 105, Spring 2024
• 06:11, 9 March 2024 Murray talk contribs created page CDS 110/ChE 105 (Redirected page to CDS 110/ChE 105, Spring 2024) Tag: New redirect
• 06:11, 3 February 2024 Murray talk contribs created page Anthony Fragoso (Created page with "{{Group member |First name=Anthony |Last name=Fragoso |Current position=Alumni |Department=AE |Co-advisor=Larry Matthies |Graduated=2017/10/11 |Previous positions=PhD student |Subsequent positions=Postdoc, California Institute of Technology (Soon-Jo Chung) U.S. Army Engineer Research and Development Center (ERDC) }}")
• 06:18, 29 January 2024 Murray talk contribs created page Trinity Lee (Created page with "{{Group member |First name=Trinity |Last name=Lee |Current position=Undergraduate |Department=BE |Previous positions=Undergraduate }}")
• 06:11, 29 January 2024 Murray talk contribs moved page CDS 110, Spring 2024 to CDS 110/ChE 130, Spring 2024
• 05:58, 23 January 2024 User account Ladeli talk contribs was created automatically
• 06:35, 20 January 2024 Murray talk contribs created page SURF discussions, Jan 2024 (Created page with "Slots for talking with applicants and co-mentors about SURF projects. Please sign up for one of the slots below. All times are PST. __NOTOC__ In preparation for our conversation, please do the following: * SURF students should work with their co-mentors to find a time the meeting/Zoom call. (For Zoom calls, co-mentors should initiate.) * Please make sure you have read the material in the description of your project, so that you are prepared to talk about what the pro...")
• 19:36, 16 January 2024 User account Hzhang9 talk contribs was created automatically
• 20:16, 15 January 2024 Murray talk contribs created page File:ICB24-syncell.png
• 20:16, 15 January 2024 Murray talk contribs uploaded File:ICB24-syncell.png
• 20:09, 15 January 2024 Murray talk contribs created page Design and Implementation of Multi-Component Synthetic Cells (Created page with "{{subst:project boilerplate}} {{Project |Title=Design and Implementation of Multi-Component Synthetic Cells |Agency=ARO/ICB |Grant number=TBD |Start date=1 Dec 2023 |End date=30 Nov 2028 |Support summary=1 graduate student, part-time technician |Reporting requirements=Annual report |Project ID=ICB24-syncell }}")
• 01:21, 3 January 2024 User account Stalukde talk contribs was created automatically
• 02:00, 30 December 2023 Yz473 talk contribs created page SURF 2024: Making Purer PURE (Created page with "'''2024 SURF project description''' __NOTOC__ * Mentor: Richard Murray * Co-mentors: Yan Zhang and Zachary Martinez <b>Main Objective:</b> Reduce background contaminant of One-Pot PURE systems === Introduction === The PURE (Protein Synthesis Using Recombinant Enzymes) system uses a defined set of 36 enzymes necessary for transcription, translation, and energy cycling to create a minimal system to support protein expression. This minimal system allows fa...")
• 21:34, 27 December 2023 Murray talk contribs created page Efficient local validation of partially ordered models via Baysian directed sampling (Created page with "{{Paper |Title=Efficient local validation of partially ordered models via Baysian directed sampling |Authors=Kellan Moorse and Richard Murray |Source=Submitted, 2024 American Control Conference (ACC) |Abstract=We consider the problem of estimating the subset of test conditions under which a simplified model—or set of simplified models—accurately approximates the behavior of a true system. We approach the problem by proposing a compact set of possible test conditions,...")
• 21:22, 27 December 2023 Murray talk contribs created page Integrase-mediated differentiation circuits improve evolutionary stability of burdensome and toxic functions in E. coli (Created page with "{{Paper |Title=Integrase-mediated differentiation circuits improve evolutionary stability of burdensome and toxic functions in E. coli |Authors=Rory L. Williams and Richard M. Murray |Source=<i>Nature Communications<i>, 13:6822, 2022 |Abstract=Advances in synthetic biology, bioengineering, and computation allow us to rapidly and reliably program cells with increasingly complex and useful functions. However, because the functions we engineer cells to perform are typically...")
• 21:18, 27 December 2023 Murray talk contribs created page Addressable and adaptable intercellular communication via DNA messaging (Created page with "{{Paper |Title=Addressable and adaptable intercellular communication via DNA messaging |Authors=John P. Marken and Richard M. Murray |Source=<i>Nature Communications</i>, 14:2358, 2023 |Abstract=Engineered consortia are a major research focus for synthetic biologists because they can implement sophisticated behaviors inaccessible to single-strain systems. However, this functional capacity is constrained by their constituent strains’ ability to engage in complex communi...")
• 21:14, 27 December 2023 Murray talk contribs created page TRILL: Orchestrating Modular Deep-Learning Workflows for Democratized, Scalable Protein Analysis and Engineering (Created page with "{{Paper |Title=TRILL: Orchestrating Modular Deep-Learning Workflows for Democratized, Scalable Protein Analysis and Engineering |Authors=Zachary A Martinez, Richard M. Murray, Matt W. Thomson |Source=Submitted, 2024 SEED |Abstract=Deep-learning models have been rapidly adopted by many fields, partly due to the deluge of data humanity has amassed. In particular, the petabases of biological sequencing data enable the unsupervised training of protein language models that le...")
• 21:12, 27 December 2023 Murray talk contribs created page Engineering the soil bacterium Pseudomonas synxantha 2-79 into a ratiometric bioreporter for phosphorus limitation (Created page with "{{Paper |Title=Engineering the soil bacterium Pseudomonas synxantha 2-79 into a ratiometric bioreporter for phosphorus limitation |Authors=Elin M. Larsson, Richard M. Murray, Dianne K. Newman |Source=To appear, ACS Synthetic Biology, 2024 |Abstract=Microbial bioreporters hold promise for addressing challenges in medical and environmental applications. However, the difficulty of ensuring their stable persistence and function within the target environment remains a challe...")
• 21:09, 27 December 2023 Murray talk contribs created page A chemical reaction network model of PURE (Created page with "{{Paper |Title=A chemical reaction network model of PURE |Authors=Zoila Jurado, Ayush Pandey, Richard M. Murray |Source=BioRxiv preprint |Abstract=Cell-free expression systems provide a method for rapid DNA circuit prototyping and functional protein synthesis. While crude extracts remain a black box with many components carrying out unknown reactions, the PURE system contains only the required transcription and translation components for protein production. All proteins...")
• 21:07, 27 December 2023 Murray talk contribs created page Development of cell-free transcription-translation systems in three soil Pseudomonads (Created page with "{{Paper |Title=Development of cell-free transcription-translation systems in three soil Pseudomonads |Authors=Joseph T. Meyerowitz, Elin M. Larsson, Richard M. Murray |Source=To appear, ACS Synthetic Biology |Abstract=In vitro transcription-translation (TX-TL) can enable faster engineering of biological systems. This speed-up can be significant, especially in difficult-to-transform chassis. This work shows the successful development of TX-TL systems using three soil-deri...")
• 20:58, 27 December 2023 Murray talk contribs created page Pacti: Scaling Assume-Guarantee Reasoning for System Analysis and Design (Created page with "{{Paper |Title=Pacti: Scaling Assume-Guarantee Reasoning for System Analysis and Design |Authors=Inigo Incer, Apurva Badithela, Josefine Graebener, Piergiuseppe Mallozzi, Ayush Pandey, Sheng-Jung Yu, Albert Benveniste, Benoit Caillaud, Richard M. Murray, Alberto Sangiovanni-Vincentelli, Sanjit A. Seshia |Source=Submitted, ACM Transactions on Cyber-Physical Systems (TCPS), Aug 2023 |Abstract=Contract-based design is a method to facilitate modular system design. While ther...")
• 20:54, 27 December 2023 Murray talk contribs created page Metabolic perturbations to an E. coli-based cell-free system reveal a trade-off between transcription and translation (Created page with "{{Paper |Title=Metabolic perturbations to an E. coli-based cell-free system reveal a trade-off between transcription and translation |Authors=Manisha Kapasiawala and Richard M. Murray |Source=SEED 2023 |Abstract=Cell-free transcription-translation (TX-TL) systems have been used for diverse applications, from prototyping gene circuits to providing a platform for the development of synthetic life, but their performance is limited by issues such as batch-to-batch variabilit...")
• 20:52, 27 December 2023 Murray talk contribs created page Control education for societal-scale challenges: A community roadmap (Created page with "{{Paper |Title=Control education for societal-scale challenges: A community roadmap |Authors=John Anthony Rossiter, Christos G. Cassandras, João Hespanha, Sebastian Dormido, Luis de la Torre, Gireeja Ranade, Antonio Visioli, John Hedengren, Richard M. Murray, Panos Antsaklis, Francoise Lamnabhi-Lagarrigue, Thomas Parisini |Source=Annual Reviews in Control, 55:1-17, 2023 |Abstract=This article focuses on extending, disseminating and interpreting the findings of an IEEE C...")
• 20:49, 27 December 2023 Murray talk contribs created page Rules of the Road: Formal Guarantees for Autonomous Vehicles With Behavioral Contract Design (Redirected page to Rules of the Road: Safety and Liveness Guarantees for Autonomous Vehicles) Tag: New redirect
• 20:43, 27 December 2023 Murray talk contribs created page A 65nm CMOS Living-Cell Dynamic Fluorescence Sensor with 1.05fA Sensitivity at 600/700nm Wavelengths (Created page with "{{Paper |Title=A 65nm CMOS Living-Cell Dynamic Fluorescence Sensor with 1.05fA Sensitivity at 600/700nm Wavelengths |Authors=Fatemeh Aghimand, Chelsea Hu, Saransh Sharma, Krishna K. Pochana, Richard M. Murray, Azita Emami |Source=2023 IEEE International Solid-State Circuits Conference (ISSCC) |Abstract=Integrated, low-cost and miniaturized devices that can detect clinically relevant biomarkers are crucial for the growing field of precision medicine as they can enable poi...")
• 20:39, 27 December 2023 Murray talk contribs created page Context-Aided Variable Elimination for Requirement Engineering (Created page with "{{Paper |Title=Context-Aided Variable Elimination for Requirement Engineering |Authors=Inigo Incer, Albert Benveniste, Richard M. Murray, Alberto Sangiovanni-Vincentelli, Sanjit A. Seshia |Source=Submitted, 2023 Formal Methods in Computer-Aided Design (FMCAD) |Abstract=Deriving system-level specifications from component specifications usually involves the elimination of variables that are not part of the interface of the top-level system. This paper presents algorithms f...")
• 20:32, 27 December 2023 Murray talk contribs created page Barrier-Based Test Synthesis for Safety-Critical Systems Subject to Timed Reach-Avoid Specifications (Created page with "{{Paper |Title=Barrier-Based Test Synthesis for Safety-Critical Systems Subject to Timed Reach-Avoid Specifications |Authors=Prithvi Akella, Mohamadreza Ahmadi, Richard M. Murray, Aaron D. Ames |Source=Submitted, IEEE Transactions on Automatic Control, 2023 |Abstract=We propose an adversarial, time-varying test-synthesis procedure for safety-critical systems without requiring specific knowledge of the underlying controller steering the system. From a broader test and eva...")
• 17:41, 27 December 2023 Murray talk contribs created page Richard Andersen (Created page with "{{Collaborator |First name=Richard |Last name=Andersen |Organization=BBE }}")
• 17:40, 27 December 2023 Murray talk contribs created page Nikos Mynhier (Created page with "{{Group member |First name=Nikos |Last name=Mynhier |Current position=PhD student |Co-advisor=Richard Andersen |LinkedIn=https://www.linkedin.com/in/nikos-mynhier-a8540b149/ }}")
• 16:50, 27 December 2023 Murray talk contribs created page Property:Subsequent positions (Created page with "This is a property of type Has type::Text.")
• 16:27, 27 December 2023 Murray talk contribs created page Kimia Hassibi (Created page with "{{Group member |First name=Kimia |Last name=Hassibi |Current position=Undergraduate |Department=CS }}")
• 21:46, 23 December 2023 Murray talk contribs created page Template:E/SEC 103 pdf (Created page with "[[http:www.cds.caltech.edu/~murray/courses/e-sec-103/{{{1}}}/{{{2}}}|{{{3|{{{2}}}}}}]]")
• 22:43, 22 December 2023 Murray talk contribs created page Bi/BE/CS 183 (Redirected page to Bi/BE/CS 183, Winter 2024) Tag: New redirect
• 00:03, 19 December 2023 Mengcao talk contribs created page File:Transgene modularity Library (1).jpeg
• 00:03, 19 December 2023 Mengcao talk contribs uploaded File:Transgene modularity Library (1).jpeg
• 04:02, 18 December 2023 Zmartine talk contribs created page SURF 2024: Towards a Minimal Model for Virus-Host Interactions (Created page with "'''2024 SURF project description''' __NOTOC__ * Mentor: Richard Murray * Co-mentors: Zachary Martinez right|600px <b>Main Idea:</b> Engineering a synthetic cell that can be infected by a natural virus. === Introduction === Viruses are abundant (~10³¹), ancient (> 4 bya), and evolve quickly (average of 10^-3 - 10^-8 mutation rate). Due to the immense diversity of viruses, between...")
• 01:05, 16 December 2023 Mengcao talk contribs created page SURF 2024: Establish synthetic biology toolkits for Steinernema nematode transgene expression (Created page with "'''SURF 2024 project description''' thumb|500px|right|Figure 1: * Mentor: Mengyi Cao == '''Project Overview:''' == ''Steinernema'' nematodes associate with species-specific mutualistic symbiotic bacteria in ''Xenorhabdus'' spp and together they can infect insects that are agricultural pests. Therefore, the nematode-bacteria partnership is a valuable experimental system to study symbiosis and is important in promoting agricultural productiv...")
• 00:44, 16 December 2023 User account Mengcao talk contribs was created automatically
• 22:51, 15 December 2023 Abadithe talk contribs created page SURF 2024: Task-Relevant Metrics for Perception (Created page with "'''2024 SURF Task-Relevant Metrics for Perception''' * Mentor: Richard Murray * Co-mentor: Apurva Badithela ==Project Description== right|800px|Caption: System-level requirements are easier to formalize than requirements on perception tasks. ==Problem== In this SURF, we will explore the interface between perception and planning more carefully. Misclassification or misdetection in a single frame is unlikely to tr...")
• 20:54, 15 December 2023 Abadithe talk contribs created page File:Double switch.mp4
• 20:54, 15 December 2023 Abadithe talk contribs uploaded File:Double switch.mp4
• 20:26, 15 December 2023 Abadithe talk contribs created page File:Single switch.mp4
• 20:26, 15 December 2023 Abadithe talk contribs uploaded File:Single switch.mp4
• 19:03, 13 December 2023 Abadithe talk contribs created page SURF 2024: Hierarchical Testing for Safety-Critical Autonomous Systems (Created page with "'''2024 SURF Hierarchical Testing for Safety-Critical Autonomous Systems''' * Mentor: Richard Murray * Co-mentor: Apurva Badithela ==Project Description== Automatically identifying failure cases of safety-critical autonomous systems is important for mainstream deployment of these systems. A few examples of such safety-critical robotic systems is illustrated on the right. Since autonomous robotic systems are complex and their domain of operation is very l...")
• 19:02, 13 December 2023 Abadithe talk contribs created page File:Autonomous robotic systems.png
• 19:02, 13 December 2023 Abadithe talk contribs uploaded File:Autonomous robotic systems.png