Difference between revisions of "20.309 Main Page"

Revision as of 14:45, 3 September 2018

20.309: Biological Instrumentation and Measurement

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20.309 course information

20.309 course information
lab safety
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20.309 master schedule

Module 1: Optics & Microscopy

Important dates	Assignment due	Assignment page links	Useful resources
9/16/18	Assignment 1	Assignment 1 Overview Part 1: Pre-lab questions Part 2: Optics bootcamp Part 3: Build a microscope Part 4: Measure stuff	Lectures 1 through 9 of the 20.309 class From Nikon MicroscopyU Conjugate planes in optical microscopy (includes transmitted and reflected (epi) illumination) Snell's law Resolution Understanding log plots
9/23/18	Assignment 2	Assignment 2 Overview Part 1: Noise in images Part 2: Fluorescence microscopy Part 3: Build an epi-illuminator for your microscope	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
9/27/18	Quiz 1 (in lecture)
9/30/18	Assignment 3	Assignment 3 Overview Part 1: fluorescence imaging Part 2: choosing filters	Flat-field correction of non-uniform illumination Matlab: Scalebars
10/7/18	Assignment 4	Overview Part 1: Make a fake image Part 2: Measure resolution Part 3: Track microspheres over time	Physical optics and resolution
10/14/18	Assignment 5	Assignment 5 Overview Part 1: Estimating the diffusion coefficient by tracking suspended microspheres Part 2: Live cell particle tracking of endocytosed beads	Converting Gaussian fit to Rayleigh resolution MATLAB: Estimating resolution from a PSF slide image Matlab: Scalebars Calculating MSD and Diffusion Coefficients
10/18/18	Exam 1 (at 7:30pm in 35-225)

Module 2: Signals and Systems

Important dates	Assignment due	Assignment page links	Useful resources
10/28/18	Assignment 6	Electronics bootcamp I: RC filters, transfer functions, nonlinear fitting	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
11/4/18	Assignment 7	Electronics bootcamp II	Real electronics Impedance analysis Transfer functions and Bode plots Complex number review Input and output impedance
11/9/18	Quiz 2 (in lecture)
11/11/18	Assignment 8	Flow channel & two-color microscope construction
11/18/18	Assignment 9	Analysis code
12/2/18	Assignment 10	Collect data
12/6/18	Exam 2 (at 7:30pm in 35-225)
12/11/18	Assignment 11	Present lab visit

@@ Line 98: / Line 98: @@
 |  <font color=#04B45F>10/28/18</font color>
 | Assignment 6
-| [[Assignment 6 Overview]]
+| Electronics bootcamp I: RC filters, transfer functions, nonlinear fitting
-* [[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]]
 |
 * [[Electronics primer]]
@@ Line 112: / Line 110: @@
 |  <font color=#04B45F>11/4/18</font color>
 | Assignment 7
-| [[Assignment 7 Overview]]
+| Electronics bootcamp II
-* [[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 3: testing your instrument and measuring a DNA melting curve| Part 3: test your instrument and measure a preliminary melting curve]]
 |
-* [[DNA Melting Thermodynamics]]
 * [[Real electronics]]
 * [[Impedance Analysis|Impedance analysis]]
@@ Line 131: / Line 125: @@
 |  <font color=#04B45F>11/11/18</font color>
 | Assignment 8
-| [[Assignment 8 Overview]]
+| Flow channel & two-color microscope construction
-* [[Assignment 8, Part 1: convolution|Part 1: convolution and lock-in amplifiers]]
-* [[Assignment 8, Part 2: lock-in amplifier and temperature control| Part 2: modify your instrument]]
 |
-* [http://mfold.rna.albany.edu/?q=DINAMelt/Hybrid2 DINAMelt Web Server]
 |-
 |  <font color=#04B45F>11/18/18</font color>
 | Assignment 9
-| [[Assignment 9 Overview]]
+| Analysis code
-* [[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|Part 2: test your code with simulated data]]
-* [[Assignment 9, Part 3: Fitting your data|Part 3: fitting your data]]
 |
-* [[DNA Melting: Model function and parameter estimation by nonlinear regression]]
-* [[DNA Melting Thermodynamics]]
-* [[DNA melting: Identifying the unknown sample]]
 |-
 |  <font color=#04B45F>12/2/18</font color>
 | Assignment 10
-| [[Assignment 10 Overview|Assignment 10: measure DNA melting curves and identify your unknown sample.]]
+| Collect data
 |
-* [[DNA melting: Identifying the unknown sample]]
-* [[DNA Melting: DNA Sequences]]
-* [[DNA Melting: Model function and parameter estimation by nonlinear regression]]
 |-
 |  <font color=#04B45F>12/6/18</font color>

Difference between revisions of "20.309 Main Page"

Revision as of 14:45, 3 September 2018

20.309 course information

20.309 master schedule

Module 1: Optics & Microscopy

Module 2: Signals and Systems

Optics and microscopy resources

Background reading

Code examples and simulations

Electronics resources

Background reading

Code examples and simulations

Reference materials

Limits of detection mini-lab

MRI mini-lab

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