20.309

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20.309: Biological Instrumentation and Measurement

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Homework #3 is Due 11/6

Announcements

October 29, 2007

  • Here is the best piece of advice you will receive on Lab Module 3: design your microscope before you begin constructing it!
  • It is strongly recommended that you:
  1. prepare a decent sketch of your design; and
  2. run it by Heejin or Jae Won before you begin construction.
  • Heejin and/or Jae Won will be in the lab Tuesday from 3:30-5:30, Wednesday from 3:00-6:00, Thursday from 1:00-6:00, and Friday 1:00-5:00
  • Access the course locker from Athena terminals by typing: attach 20.309; cd /mit/20.309/Students or via SecureFX

October 29, 2007

  • Homework # 3 is due 11/6. (Many scholars have requested and received an extension through 11/8.)

October 26, 2007

  • Slides from Professor So's lectures are available in the course locker

This week

11/5-11/9
Lecture & Recitation
Tuesday
  • Fluorescence spectroscopy & microscopy
Thursday
  • Advanced fluorescence microscopy
Friday
Optional reading
  • No optional readings this week
Homework

Homework #3 due Tuesday

Lab

Next week

11/12-11/16
Lecture & Recitation
Tuesday
  • Microrheology and particle tracking
Thursday
  • Optical trapping (Professor Lang guest lecture)
Friday
  • Student Presentations
Optional reading
  • No optional readings this week
Homework
  • None assigned
Lab

Week 8

10/29-11/2
Lecture & Recitation
Tuesday
  • Geometric optics
  • Ray tracing
  • Optical microscopy
Thursday
Friday
Optional reading
  • No optional readings this week
Homework

Homework #3

Lab
  • No lab this week

Week 7

10/22-10/27
Lecture & Recitation
Tuesday
Thursday
  • Optical Instruments I: Physics, Noises, Detectors
Friday
  • Optical Instruments II: Detectors, Lamps, Lasers
Optional reading
  • No optional readings this week
Homework
  • None assigned
Lab

Week 6

10/15-10/19
Lecture & Recitation
Tuesday
  • Atomic force microscopy
Thursday
  • Image processing
Friday
  • MANDATORY: Laser safety training
  • Image processing in MatLAB
Optional reading
  • No optional readings this week
Homework

Homework Set #2 (due 10/18 at lecture)

Lab
  • AFM alignment and calibration
  • AFM thermal noise measurement

Week 5

10/8-10/12
Lecture & Recitation
Tuesday
  • No lecture (holiday)
Thursday
  • Equipartition theorem and thermal fluctuations
Friday
Optional reading
  • No optional readings this week
Homework

Homework Set #2 (due 10/18 at lecture)

Lab
  • DNA Melting lab report due
  • AFM alignment and calibration
  • AFM imaging I

Week 4

10/1-10/5
Lecture & Recitation
Tuesday
  • PSD and signal-to-noise
  • Convolution
Thursday
  • Convolution Theorem
  • Application to lock-in detection
Friday
  • Introduction to AFM lab module
Optional reading
  • No optional readings this week
Homework
Lab

Week 3(9/25-9/28)

Lecture & recitation

Tuesday

  • Fourier analysis (cont'd)

Thu, Sep. 27

  • Signals, noise, Power Spectral Density

Friday

Readings

Homework

Homework Set #1 (due 9/25)


Lab

Week 2 (9/17-9/21)

Lecture & recitation

Tuesday

  • Feedback
  • Black's formula
  • op-amps: "golden rules" and circuit examples

Thursday

  • Fourier series & integrals
  • Fourier transform (continuous & discrete)

Friday

  • Review of ideal elements and circuit modeling
  • Modeling a battery with the ideal elements
  • Real vs. ideal op-amps
  • Ugly op-amp example

Readings

Homework

Homework Set #1 (due 9/25)

Lab

Lab manual for DNA Melting (weeks 2-4, due 10/12)

Week 1 (9/10-9/14)

Readings

RC Circuits

Primary: Art of Electronics (Hayes and Horowitz)

Supplemental: MIT 6.002 notes

This brief introduction to diodes will be helpful for working on the labs this week.

Homework

Homework Set #1 (due 9/21)

Lab

Lab manual for Introduction to Electronics


Week 0 (9/6-9/7)

Readings

DC Circuits

Primary: Art of Electronics (Hayes and Horowitz)

Supplemental: MIT 6.002 notes