F2021/ PMB 185
Lecture (27166) MWF 9-10AM 106 Wheeler
Lab (27167) F 1-4, 208 GPBB
3 Units
Denise Schichnes Ph.D.
Biological Imaging Facility
381 Koshland Hall
The course will be a detailed overview of the practice of light microscopy as applied to scientific investigation. The emphasis of the course will be on the use of the light microscope by biological scientists, however students of other disciplines are welcome. We will cover optical microscope theory, microscope components and mechanics, and all modern optical techniques from Brightfield through Deconvolution microscopy, Structured Illumination, and others. Instruction will consist of lectures and Demonstrations.
Lab Friday 14PM 208 GPBB
Grading: There will be a Midterm written and practical exams as well as a written Final Exam. For labs, students will be required to complete a worksheet for each of the labs. In addition, a project is required for the class. It consists of a written paper describing your forensic analysis of an unknown substance.
The textbook is available for $26 at Instant Copying and Laser Printing (2138 University Ave).
or anytime you want, just ask.
Date
|
Lecture/Lab topic, Fall 2021 |
|
Lecture
|
Topic in Lecture |
Lab topic (Fridays)
|
Aug 25
|
Introduction |
|
27
|
Light and Refraction |
No Lab
|
30
|
Microscope Optics: Lenses annd Conjugate planes | |
Sept 1
|
Optics: Imaging, diffraction, and its consequences for resolution | |
3
|
Numerical Aperture and Resolution revisited |
1: Microscope optics
|
6
|
No Class | |
8
|
Lens aberrations (spherical, chromatic) | |
10
|
Microscope configurations: The compound microscope , Microscope Standard Lengths |
2: Köhler illumination
Focus Examples |
13
|
The Condenser: history, optics & Köhler illumination |
|
15
|
Objectives, objective designations, Eyepieces |
|
17
|
Darkfield microscopy, Rheinberg Illumination, Oblique Illumination |
3: Darkfield
|
20
|
Polarized light, Anisotropy, Types of birefringence, Polarized light microscope | |
22
|
Polarized light microscopy, Generation of colors, |
|
24
|
Polarized light microscopy: Quantitative PLM |
4: Polarized Light Microscopy
|
27
|
Phase Contrast microscopy, presentation, examples, Zernike's Nobel Speech | |
29
|
Phase Contrast microscopy |
|
Oct 1
|
Inverted Microscope, Stereo Microscope, |
5: Phase Contrast
|
4
|
Interferometry, Differential Interference Contrast Presentation; DIC microscope |
|
6
|
PlasDIC |
|
8
|
Hoffman Modulation Contrast |
6: DIC
|
11
|
Review of transmitted light techniques, Key to determining imaging method | |
13
|
Microscope Jeopardy | |
15
|
Midterm Exam (Example) |
7: Lab Practical Exam
|
18
|
Fluorescence Microscopy, Stokes Shift, Types of sample fluorescence |
|
20
|
Fluorescence Microscope, presentation |
|
22
|
Digital Imaging, Nyquist sampling, Digital imaging for microscopy |
8: Epifluorescence microscopy
|
25
|
Laser scanning confocal microscopy I | |
27
|
|
|
29
|
9: Fluorescence Probing
|
|
Nov 1
|
Two photon microscopy and resolution, presentation | |
3
|
Two photon microscopy II |
|
5
|
10: Confocal microscopy (Zoom)
|
|
8
|
Restoration microscopy I, Basis, PSF, Methods, |
|
10
|
Restoration microscopy II, Here's a short tutorial on Filtering |
|
12
|
SPIM (Lightsheet imaging) |
11: Project Explained
|
15
|
Super Resolution: Structured Illumination Microscopy (SIM) |
|
17
|
Super Resolution: STED | |
19
|
Super Resolution: PALM/StORM |
12: SIM (Zoom)
|
22
|
Advanced fluorescence imaging: FRAP, FRET, FLIM | |
24
|
Holiday: No Class |
|
26
|
Holiday: No Class |
Holiday: No Lab
|
29
|
Total Internal Reflection microscopy, TIRF microscope, Implications; |
|
Dec 1
|
Finals Review Resources; Finals Jeopardy; BF Review, Fluor review | |
3
|
The History of the Microscope |
13: Tour of the Golub Collection
|
6
|
RRR Week: No Lecture |
|
8
|
RRR Week: No Lecture. |
|
10
|
RRR Week: No Lecture. Project Due 5PM. Upload to bCourses |
|
1316 |
The final exam will be take-home |
|
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