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Hours
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Mon, Wed 2:30-4:00 pm
Broad
200 Seminar Room
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Lecture
schedule (MAY BE UPDATED!)
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Jan
04
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Lecture
00: Organizational meeting
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Jan
09
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Lecture
01: Basic optics
Homework 1,
Due 01/11/12 (beginning of class)
Syllabus
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Jan
11
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Lecture
02: Design and layout of real microscopes
Homework 2,
Due 01/18/12 (beginning of class)
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Jan
18
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Lecture 03: Lasers (physics, types, functions) (Ying Min Wang)
** By 2:30pm email Danielle the paper you will review for project 1
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Jan
23
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Lecture
04: Fluorescence microscopy
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Jan
25
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Lecture 05: Widefield vs laser scanning microscopy: adding the 3rd dimension
Homework 3, Due 02/01/12
** Exchange project 1 drafts for peer review
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Jan
30
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Lecture 06: Scattering and imaging I: Problem statement, clearing, whole animal imaging, OPT, DOT (Benjamin Judkewitz)
**Comments on your peer's paper due at beginning of class!
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Feb
01
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Lecture 07: Scattering and imaging II: 2PM, OCT, PAM, MSOT (Benjamin Judkewitz)
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Feb
06
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Lecture
08: Compromises between resolution, contrast, and detection
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Feb
08
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Lecture
09: Structured illumination and AVEC microscopy
** Project 1 due at the beginning of class.
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Feb
13
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Lecture
10: Detectors and detector noise
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Feb
15
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Lecture
11: Emerging imaging techniques (AFM, NSOM Blockface Imaging)
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Feb
22
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Lecture
12: Emerging imaging techniques (STED, 4pi, PALM/STORM)
** Submit paper choice for approval by TA for project 2.
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Feb
27
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Lecture
13: Quantitative fluorescence microscopy
(Jennifer Lippincott-Schwartz)
**NOTE TIME CHANGE 2/27: NO CLASS AT 2:30 BUT ATTEND LECTURE AT 4PM**
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Feb
29
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Lecture
14: Digital images: formation, visualization, processing, and analysis (Alphan Altinok)
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Mar
05
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Lecture
15: Light paths, filters and dichroic reflectors (demo)
** Draft of project 2 paper due at the beginning of class. Exchange for peer review.
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Mar
07
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Lecture
16: FRET, FRAP, and FDAP for molecular imaging
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**Complete peer review
and exchange comments.
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Mar
12
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**Final, revised
project 2 due by 2:30pm!
Please turn in to Danielle (Brown OR Bower)'s mailbox in the BI lobby:
1) your first draft of paper #2,
2) the peer comments you received, and
3) your final draft,
all paper-clipped together.
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Reading
Projects
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Read and study
a published paper in a mainstream journal. Write
a short report concerning this paper. The report should be ~5 pages
long. Get
pre-approval of TA on paper/topic.
Peer Review Form
Grading Criteria
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Coursework
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Reading
6
Simple problem sets
Paper
reading project (2 per term)
No
midterm or final exam
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Grading
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Grades
based on the Homework and the Projects.
Homework,
Project 1, Project 2 are given equal weight.
Late
homework assignments are not accepted.
Score
can be dropped with medical or Dean's excuse.
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Auditors
and non-traditional students
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Auditors
are welcome to take the Course, but are required to do the homework
problem sets and reading.
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Links
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Bi177
& Bi227 website
Microscope
Primer
Microscopy
from the Very Beginning (Zeiss)
Olympus
Microscopy Primer
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