OVERVIEWFor the term project, you are asked to design and analyze a novel biological system or to analyze an existing biological system (synthetic or natural) in depth in a novel way. This project will be completed individually, though you are encouraged to ask for and provide help to fellow students on the discussion forums. A list of possible project ideas to spark creativity is provided at the end of this prompt. Due dates for project milestones are provided below.
You may use MATLAB/Octave, Gro, or Python for the analysis of your system. It might be harder to find help with other frameworks or languages, so we strongly suggest sticking to these options! DELIVERABLESThe term project will be graded on four submissions:
The major outcome of the term project is a presentation in the form of a video recording. The videos should not exceed 10 minutes in length and should cover the extent of your project, including problem statement, the synthetic system created, model formulation, and analysis of the simulations. In addition to your presentation, you will be required to provide a short, 2-5 page document that includes a general description of your project, the specifics of your model (equations, parameters, and assumptions), simulation code, accompanying figures, and any supplemental information you wish to include. This document can be assembled from portions of the Project and Model Descriptions turned in with PS4 and PS5 (see above) and should contain an overview of your analysis results as well as the insights you found. SYSTEM REQUIREMENTSProjects should be contained to no more than 12 system pieces (regulatory elements like repressor-operator pairs, miRNA-target pairs, reporter proteins etc.) to guarantee feasibility of the design and analysis by the end of the course. DUE DATES
Project Description:
POTENTIAL PROJECT IDEASIn the 2010 iteration of this course, students from Berkeley and MIT compiled their results into a mock journal, feel free to read it but note that the prompt for the term project was different then and focused heavily on the write-up, whereas in this course more emphasis is put on a recorded presentation of your results. Below is a list of potential projects. Some of these ideas require very sophisticated implementation or analysis that might be outside of the scope of this course; feel free to focus on more manageable aspects of such ideas.You are encouraged to come up with your own project ideas! If you come up with multiple exciting ideas, feel free to share them with others!
The final presentation videos can be assembled using any of the methods below:
Instructions on how to submit the videos will be given later in the term. |
ArchivesCategories
All
|