Difference between revisions of "Assignment 5 Overview"
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#* Plot two or more example bead trajectories for each of the samples. (Hint: If you subtract the initial position from each trajectory, then you can plot multiple trajectories on a single set of axes.) | #* Plot two or more example bead trajectories for each of the samples. (Hint: If you subtract the initial position from each trajectory, then you can plot multiple trajectories on a single set of axes.) | ||
# Analysis and Results | # Analysis and Results | ||
− | #* Plot the | + | #* Plot the MSD vs time (from the difference trajectories) for untreated and Cyto D treated cells on a single set of log-log axes. Plot the individual MSDs from each pair of beads in each movie. Use a single color for all the untreated cells, and a different color for all the treated cells. Do not include MSDs of particles not endocytosed by the cells. |
+ | #* Combine your data with others from the class to increase your sample size. | ||
# Discussion | # Discussion | ||
#* What kind of motion do you see described by your MSD vs τ results? | #* What kind of motion do you see described by your MSD vs τ results? | ||
#* What differences do you see between the untreated and Cyto D treated MSD curves? | #* What differences do you see between the untreated and Cyto D treated MSD curves? | ||
#* Please suggest an interpretation of the behavior of your cells based on your data. | #* Please suggest an interpretation of the behavior of your cells based on your data. | ||
− | + | #* Include a thorough discussion of error sources and your approaches to minimize them. As in Assignment 4, list out the error sources in a table, including a category for the error source, type of error (random, systematic, fundamental, technical, etc.), the magnitude of the error, and a description and way to minimize each one. Your MSD measurements of the still beads (from Part 1 of this assignment) will be useful for estimating the magnitude of several significant error sources. | |
Include any MATLAB code you've written as an appendix to your assignment. | Include any MATLAB code you've written as an appendix to your assignment. |
Latest revision as of 13:34, 23 March 2020
Assignment details
This assignment has 2 parts:
- Part 1: Implementing difference tracking and measuring the stability of your microscope;
- Part 2: Live cell particle tracking of endocytosed beads.
Submit your work in on Stellar in a single PDF file with the naming convention <Lastname><Firstname>Assignment5.pdf.
Code examples and simulations
- Converting Gaussian fit to Rayleigh resolution
- Matlab: Scalebars
- Calculating MSD and Diffusion Coefficients
- Overview
- Part 1: MSD difference tracking and microscope stability
- Part 2: Live cell particle tracking of endocytosed beads
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