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Revision as of 15:34, 11 September 2016
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20.309 This week and next in the 20.309 lab
| Week | Summary | Assignments due | Lab Manual | Resources |
| Week 2: Sept. 11 - 17 | Finish the Optics Bootcamp and start Microscopy 1 | Wednesday, Sept. 14: Optics Bootcamp | Optics Bootcamp continued (Sun-Wed) | |
| Microscopy 1 (Wed-Sun) | Overview
Code examples and simulations
Background reading | |||
| Week 3: Sept. 18 - 24 | Finish Microscopy 1 and start Microscopy 2 | Wednesday Sept. 21: Microscopy 1 | Microscopy 1 continued (Mon-Wed) | |
| Microscopy 2 (Wed-Sat) |
Contents
20.309 course information
Reserve a lab station here: Bioinstrumentation Lab reservation system
Optics bootcamp
Lab manual
Background reading
- Geometrical optics and ray tracing
- Optical detectors, noise, and the limit of detection
- Manta G032 camera measurements
Optical microscopy lab
Code examples and simulations
- Converting Gaussian fit to Rayleigh resolution
- MATLAB: Estimating resolution from a PSF slide image
- Matlab: Scalebars
- Calculating MSD and Diffusion Coefficients
Background reading
- Geometrical optics and ray tracing
- Physical optics and resolution
- Optical aberrations
- Aperture and field stops
- Optical detectors, noise, and the limit of detection
- Manta G032 camera measurements
- Understanding log plots
Electronics bootcamp
Lab manual
Background reading
- Electronics primer
- Khan Academy Material, esp. "Ideal Circuit Elements" and "Voltage Divider"
- Real electronics
- Impedance analysis
- Transfer functions and Bode plots
- Complex number review
- Input and output impedance
DNA melting lab
Lab manuals
- Lab Manual:Measuring DNA Melting Curves
- DNA Melting Part 1: Measuring Temperature and Fluorescence
- DNA Melting Report Requirements for Part 1
- DNA Melting: Model function and parameter estimation by nonlinear regression
- DNA Melting: Simulating DNA Melting - Intermediate Topics
- DNA melting: Identifying the unknown sample
- DNA Melting Part 2: Lock-in Amplifier and Temperature Control
- DNA Melting Report Requirements for Part 2
Code examples and simulations
- DNA Melting: Simulating DNA Melting - Basics
- DNA Melting: Simulating DNA Melting - Intermediate Topics
- DNA Melting: Model function and parameter estimation by nonlinear regression
Reference materials
Background reading
Limits of detection mini-lab
- Lab Manual: Limits of Detection
- Lab Manual: Atomic Force Microscopy (AFM)
- Limits of Detection: Data Sessions
