Difference between revisions of "20.309 Main Page"
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| Assignment 5 | | Assignment 5 | ||
| [[Assignment 5 Overview|Assignment 5 Overview]] | | [[Assignment 5 Overview|Assignment 5 Overview]] | ||
| − | * [[Assignment 5, Part 1: viscosity and diffusivity in glycerol-water mixtures|Part 1: | + | * [[Assignment 5, Part 1: viscosity and diffusivity in glycerol-water mixtures|Part 1: Estimating the diffusion coefficient by tracking suspended microspheres]] |
| − | * [[Assignment 5, Part 2: live cell particle tracking of endocytosed beads| Part 2: | + | * [[Assignment 5, Part 2: live cell particle tracking of endocytosed beads| Part 2: Live cell particle tracking of endocytosed beads]] |
| | | | ||
* [[Converting Gaussian fit to Rayleigh resolution]] | * [[Converting Gaussian fit to Rayleigh resolution]] | ||
| Line 78: | Line 78: | ||
| Assignment 6 | | Assignment 6 | ||
| [[Assignment 6 Overview]] | | [[Assignment 6 Overview]] | ||
| − | * [[Assignment 6, Part 1: Pre-lab questions|Part 1: Pre-lab questions]] | + | * [[Assignment 6, Part 1: Pre-lab questions|Part 1: Pre-lab questions]] |
| − | * [[Assignment 6, Part 2: Electronics bootcamp|Part 2: Build circuits and measure them]] | + | * [[Assignment 6, Part 2: Electronics bootcamp|Part 2: Build circuits and measure them]] |
* [[Assignment 6, Part 3: Transimpedance amplifier|Part 3: Amplify photodiode signal]] | * [[Assignment 6, Part 3: Transimpedance amplifier|Part 3: Amplify photodiode signal]] | ||
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| Line 93: | Line 93: | ||
* [[Assignment 7, Part 1: op amp golden rules questions|Part 1: Op amps]] | * [[Assignment 7, Part 1: op amp golden rules questions|Part 1: Op amps]] | ||
* [[Assignment 7, Part 2: measure temperature and fluorescence| Part 2: measure temperature and fluorescence]] | * [[Assignment 7, Part 2: measure temperature and fluorescence| Part 2: measure temperature and fluorescence]] | ||
| + | * [[Assignment 7, Part 3: testing your instrument and measuring a DNA melting curve| Part 3: test your instrument and measure a preliminary melting curve]] | ||
| + | |||
| | | | ||
* [[DNA Melting: Simulating DNA Melting - Basics]] | * [[DNA Melting: Simulating DNA Melting - Basics]] | ||
| Line 115: | Line 117: | ||
| Assignment 9 | | Assignment 9 | ||
| [[Assignment 9 Overview]] | | [[Assignment 9 Overview]] | ||
| − | * [[Assignment 9, Part 1: model function|Part 1: writing the model function]] | + | * [[Assignment 9, Part 1: model function|Part 1: writing the model function]] |
| − | * [[Assignment 9, Part 2: Simulating DNA melting data and testing the model function|testing the model with simulated data]] | + | * [[Assignment 9, Part 2: Simulating DNA melting data and testing the model function|testing the model with simulated data]] |
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Revision as of 14:36, 31 August 2017
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20.309 Master Schedule
| Important dates | Assignment due | Assignment page links | Useful resources |
| 9/17/17 | Assignment 1 |
| |
| 9/24/17 | Assignment 2 | Assignment 2 Overview | |
| 9/28/17 | Quiz 1 (in lecture) | ||
| 10/1/17 | Assignment 3 | Assignment 3 Overview | |
| 10/8/17 | Assignment 4 | ||
| 10/15/17 | Assignment 5 | Assignment 5 Overview | |
| 10/19/17 | Exam 1 (at 7:30pm in room ____) | ||
| 10/29/17 | Assignment 6 | Assignment 6 Overview | |
| 11/2/17 | Quiz 2 (in lecture) | ||
| 11/5/17 | Assignment 7 | Assignment 7 Overview | |
| 11/12/17 | Assignment 8 | Assignment 8 Overview | |
| 11/19/17 | Assignment 9 | Assignment 9 Overview | |
| 12/3/17 | Assignment 10 | ||
| 12/7/17 | Exam 2 (at 7:30pm in room _____) | ||
| 12/13/17 | Assignment 11 |
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
- Understanding log plots
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
