20.309

Homework #3 is Due 11/6

Announcements

October 29, 2007

• Homework # 3 (due 11/6) has been posted.

October 26, 2007

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

October 22, 2007

• Notes on thermal noise calculations and measurements

October 15, 2007

• The imaging and force spectroscopy portions of the AFM module are now optional (for extra credit).
• Please do the thermal noise measurements this week to ensure that you have enough time for data analysis.

This week

10/29-11/2
Lecture & Recitation
Tuesday	Geometric optics Ray tracing Optical microscopy
Thursday	Optical microscopy Student presentation
Friday	Student presentations Fluorescence microscope design review presentations
Optional reading
No optional readings this week
Homework
Homework #3
Lab
No lab this week

Next week

11/5-11/9
Lecture & Recitation
Tuesday	Fluorescence spectroscopy & microscopy
Thursday	Advanced fluorescence microscopy
Friday	Student presentations
Optional reading
No optional readings this week
Homework
Homework #3 due Tuesday
Lab
Building Fluorescence Microscopes

Week 7

10/22-10/27
Lecture & Recitation
Tuesday	Image processing II
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
Complete Atomic Force Microscopy 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	Scanning probe microscopy student presentations
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
Homework Set #2 (due 10/16)
Lab
Complete DNA melting experiment

Week 3(9/25-9/28)

Lecture & recitation

Tuesday

• Fourier analysis (cont'd)

Thu, Sep. 27

• Signals, noise, Power Spectral Density

Friday

• Student presentations (Session #1)

Readings

• Fourier Transforms.
• FFT reference material
• Tutorial 1: Overview of Fourier Transforms
• Tutorial 2: Sampling and Aliasing
• Papers for presentations on Friday.

Homework

Homework Set #1 (due 9/25)

Lab

• Lab manual for DNA Melting (weeks 2-4, due 10/12)
• DNA thermodynamics: SantaLucia, PNAS 1998.

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

• Primary: Art of Electronics (Hayes and Horowitz)
• Supplemental: MIT 6.002 notes
• Matlab Tutorial file 1 (the basics)
• Matlab Tutorial file 2 (curve fitting, etc...)

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