Difference between revisions of "20.309 Main Page"
From Course Wiki
Juliesutton (Talk | contribs) m (→Background reading) |
Juliesutton (Talk | contribs) (→20.309 This week and next) |
||
Line 9: | Line 9: | ||
− | == 20.309 | + | == 20.309 Master Schedule== |
− | + | ||
{| border=1px | {| border=1px | ||
− | |style="width: 15%;"|''' | + | |style="width: 15%;"|'''Important dates''' |
− | |style="width: 15%;"|''' | + | |style="width: 15%;"|'''Assignment due''' |
− | + | |style="width: 30%;"|'''Assignment page links''' | |
− | |style="width: | + | |style="width: 40%;"|'''Useful resources''' |
− | |style="width: | + | |
|-- | |-- | ||
− | | | + | | <font color=#04B45F>9/17/17</font color> |
− | | | + | | [[Assignment 1 Overview: Transillumination microscopy|Assignment 1]] |
− | + | ||
− | + | ||
| | | | ||
+ | [[Assignment 1 Overview: Transillumination microscopy| Assignment 1 Overview]] | ||
+ | * [[Assignment 1, Part 1: Pre-lab questions|Part 1: Pre-lab questions]] | ||
+ | * [[Assignment 1, Part 2: Optics bootcamp|Part 2: Optics bootcamp]] | ||
+ | * [[Assignment 1, Part 3: Microscope design|Part 3: Microscope design]] | ||
+ | * [[Assignment 1, Part 4: Building your transilluminated microscope|Part 4: Building your microscope]] | ||
| | | | ||
− | * [[ | + | * [[Geometrical optics and ray tracing]] |
− | * [ | + | * [[Physical optics and resolution]] |
− | * [[ | + | * [https://stellar.mit.edu/S/course/20/fa13/20.309/materials.html Lectures 1 through 9 of the 20.309 class] |
− | + | * From [http://www.microscopyu.com Nikon MicroscopyU] | |
+ | ** [http://www.microscopyu.com/articles/formulas/formulasconjugate.html Conjugate planes in optical microscopy] (includes transmitted and reflected (epi) illumination) | ||
+ | ** [http://www.microscopyu.com/articles/formulas/formulasri.html Snell's law] | ||
+ | ** [http://www.microscopyu.com/articles/formulas/formulasresolution.html Resolution] | ||
+ | * [[Understanding log plots]] | ||
|- | |- | ||
− | | | + | | <font color=#04B45F>9/24/17</font color> |
+ | | [[Assignment 2: fluorescence microscopy| Assignment 2]] | ||
+ | | [[Assignment 2: fluorescence microscopy| Assignment 2 Overview]] | ||
+ | * [[Assignment 2: epi illuminator for fluorescence microscopy|Part 1:epi illumination]] | ||
+ | * [[Assignment 2: resolution and noise|Part 2: resolution and noise]] | ||
| | | | ||
+ | |- | ||
+ | | <font color=#04B45F>9/28/17</font color> | ||
+ | | Quiz 1 (in lecture) | ||
+ | | || | ||
+ | |- | ||
+ | | <font color=#04B45F>10/1/17</font color> | ||
+ | | [[Assignment 3 Overview|Assignment 3]] | ||
+ | | [[Assignment 3 Overview|Assignment 3 Overview]] | ||
+ | * [[Assignment 3, Part 1: visualizing actin with fluorescence contrast|Part 1: fluorescence imaging]] | ||
+ | * [[Assignment 3, Part 2: experimental design with fluorescence| Part 2: choosing filters]] | ||
| | | | ||
+ | |- | ||
+ | | <font color=#04B45F>10/8/17</font color> | ||
+ | | [[Assignment 4: finding and measuring things|Assignment 4]] | ||
+ | | | ||
| | | | ||
+ | |- | ||
+ | | <font color=#04B45F>10/15/17</font color> | ||
+ | | [[Assignment 5 Overview|Assignment 5]] | ||
+ | | [[Assignment 5 Overview|Assignment 5 Overview]] | ||
+ | * [[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:]] Live cell particle tracking of endocytosed beads. | ||
| | | | ||
+ | |- | ||
+ | | <font color=#04B45F>10/19/17</font color> | ||
+ | | Exam 1 (at 7:30pm in room ____) | ||
+ | | | ||
+ | | | ||
+ | |- | ||
+ | | <font color=#04B45F>10/29/17</font color> | ||
+ | | [[Assignment 6 Overview|Assignment 6]] | ||
+ | | | ||
+ | | | ||
+ | |- | ||
+ | | <font color=#04B45F>11/2/17</font color> | ||
+ | | Quiz 2 (in lecture) | ||
+ | | | ||
+ | | | ||
+ | |- | ||
+ | | <font color=#04B45F>11/5/17</font color> | ||
+ | | [[Assignment 7 Overview|Assignment 7]] | ||
+ | | [[Assignment 7 Overview|Assignment 7 Overview]] | ||
+ | * [[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]] | ||
+ | | | ||
+ | |- | ||
+ | | <font color=#04B45F>11/12/17</font color> | ||
+ | | [[Assignment 8 Overview|Assignment 8]] | ||
+ | | | ||
+ | | | ||
+ | |- | ||
+ | | <font color=#04B45F>11/19/17</font color> | ||
+ | | [[Assignment 9 Overview|Assignment 9]] | ||
+ | | | ||
+ | | | ||
+ | |- | ||
+ | | <font color=#04B45F>12/3/17</font color> | ||
+ | | [[Assignment 10 Overview|Assignment 10]] | ||
+ | | | ||
+ | | | ||
+ | |- | ||
+ | | <font color=#04B45F>12/7/17</font color> | ||
+ | | Exam 2 (at 7:30pm in room _____) | ||
+ | | | ||
+ | | | ||
+ | |- | ||
+ | | <font color=#04B45F>12/13/17</font color> | ||
+ | | [[Assignment 11 Overview|Assignment 11]] | ||
+ | | | ||
+ | | | ||
+ | |- | ||
+ | |||
|} | |} | ||
</div> | </div> |
Revision as of 18:16, 16 August 2017
Bioinstrumentation scholars: you are welcome to edit and improve this course wiki. Correct, helpful, exquisitely-expressed changes will increase your class participation grade. Alterations not meeting those critera may have the opposite effect.
If you would like to contribute to this site, please request an account.
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 | ||
11/2/17 | Quiz 2 (in lecture) | ||
11/5/17 | Assignment 7 | Assignment 7 Overview | |
11/12/17 | Assignment 8 | ||
11/19/17 | Assignment 9 | ||
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