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Steven Ruzin Ph.D.
CNR 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 correct and appropriate use of the light microscope for 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. Instruction will consist of lectures, demonstrations, and practice using the light microscopes in the CNR Biological Imaging Facility.
Laboratory: The laboratory will consist of one, 3-hour session per week per student in the CNR Biological Imaging Facility, 381 Koshland Hall. The lab will be divided into three groups of five students each. Each student is responsible for one 1-hour session per week. Here are the Laboratory Date Assignments.
Grading: There will be two written exams: Midterm and Final. In addition, students will be required to submit one digital image for each of the techniques discussed. Each image is due one week after the particular technique is discussed. Late images will not be accepted.
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Date
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Lecture/Lab topic |
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Aug 28
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Introduction and Laboratory signups |
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Sep 2
|
Microscope optics: Light and Refraction, Lenses, Imaging and Resolution |
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4
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Lens aberrations (spherical, chromatic), The compound microscope |
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9
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Objectives, objective designations, Numerical Aperture |
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11
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Eyepieces, Inverted Microscope, Stereo Microscope |
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16
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The Condenser (history, optics & Köhler illumination (Lecturer: Dr. Denise Schichnes) |
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18
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Contrast derived from Light Scattering: Darkfield microscopy, Rheinberg Illumination, Oblique Illumination |
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23
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Polarized light microscopy (presentation): Polarized light, Anisotropy, Types of birefringence, Polarized light microscope |
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25
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Phase Contrast microscopy |
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30
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Differential Interference Contrast microscopy, Hoffman Modulation Contrast |
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Oct 2
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Review of transmitted light techniques |
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7
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Fluorescence intro, Stokes law, Fluorescence microscope |
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9
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Use of fluorescence in Biology (presentation) |
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14
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Laser scanning confocal microscopy: description, confocal microscope resolution, lecture |
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16
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Exam review |
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21
|
Midterm Exam |
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23
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Multiphoton confocal microscopy |
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28
|
Optional tours to the MIC to see the 2P microscope |
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30
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Optional tours to the MIC to see the 2P microscope |
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Nov 4
|
Deconvolution microscopy I: Lecture, Convolution and deconvolution |
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6
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Deconvolution microscopy II: PSF, RestorationMethods |
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11
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HOLIDAY |
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13
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High Speed confocal imaging: Nipkow disks, Spinning Disk & Sweep Scanners, Slit scanning confocal microscopes |
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18
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Total Internal Reflection microscopy |
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20
|
Advanced fluorescence imaging: FRAP, FRET, FLIM |
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25
|
Optional tour of the X-Ray microscope at LBNL |
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27
|
HOLIDAY |
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Dec 2
|
Digital microscope imaging: Cameras |
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4
|
Historical perspective, The Golub Collection |
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9
|
Final Review, Extra Credit Project Due; Comparison of Advanced Fluorescence Techniques |
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Dec 16,
8-11AM |
Final Exam |
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The content of this website is Copyright © 2008 Steven Ruzin, Berkeley CA. All rights reserved.
Updated