The BIF offers a UCB lecture & lab course, PMB185, that covers all aspects of Light Microscopy. These are the topics covered.

PMB 185 Techniques in Light Microscopy

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, labs, and Demonstrations.

Grading: There is a Midterm written exam, Midterm Practical exam, and Final written Exam. For labs, students are required to complete one worksheet for each of the labs. Worksheet is due at the end of that lab. 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 Techniques in Light Microscopy. It is available for $26 at Instant Copying and Laser Printing (2138 University Ave, Berkeley).

Lecture

Topic in Lecture

Reading pages

Lab topic (Fridays)

Aug 25

Introduction

  

27

Light and Refraction

10–15

No Lab

30

Microscope Optics: Lenses and Conjugate planes

16–18

 

Sept 1

Microscope optics: Imaging and Resolution

18–21

 

3

Numerical Aperture and Resolution

22–25

1: Microscope optics

6

No Class

  

8

Lens aberrations (spherical, chromatic)

26–32

 

10

Microscope configurations: The compound microscope, Microscope Standard Lengths

33–37

2: Köhler illumination
Focus Examples

13

The Condenser: history, optics & Köhler illumination

38–42

 

15

Objectives, objective designations, Eyepieces

43–52

 

17

Darkfield microscopy, Rheinberg Illumination, Oblique Illumination

54–58

3: Darkfield

20

Polarized light, Anisotropy, Types of birefringence, Polarized light microscope

59–71

 

22

Polarized light microscopy, Generation of colors,

72–76

 

24

Polarized light microscopy: Quantitative PLM

77–80

4: Polarized Light Microscopy

27

Phase Contrast microscopy I

81–82

 

29

Phase Contrast microscopy II

83–88

 

Oct 1

Inverted Microscope, Stereo Microscope,

53

5: Phase Contrast

4

Interferometry, Differential Interference Contrast Presentation; DIC microscope

89–98

 

6

PlasDIC

99–100

 

8

Hoffman Modulation Contrast

100–102

6: DIC

11

Review of transmitted light techniques, Key to determining imaging method

103–105

 

13

Microscope Jeopardy

  

15

Midterm Exam

 

7: Lab Practical Exam

18

Fluorescence Microscopy, Stokes Shift, Types of sample fluorescence

106–110

 

20

Fluorescence Microscope

110–115

 

22

Digital Imaging, Nyquist sampling, Digital imaging for microscopy

131–135

8: Epifluorescence microscopy

25

Laser scanning confocal microscopy I, presentation

123–130

 

27

Laser scanning confocal microscopy II, resolution

ditto

 

29

Laser scanning confocal microscopy III

ditto

9: Fluorescence Probing

Nov 1

Spinning Disk & Sweep Scanners, Nipkow disks

136–140

 

3

Two photon microscopy and resolution, presentation

141–146

 

5

Two photon microscopy II

146–148

10: Confocal microscopy (Zoom Lecture)

8

Restoration microscopy I, Basis, PSF, Methods,

157–166

 

10

Restoration Microscopy II

ditto

 

12

SPIM — Light Sheet Imaging

149–156

11: Project Explained

15

Super Resolution: Structured Illumination Microscopy (SIM)

167–173

 

17

Super Resolution: STED

174–182

 

19

Super Resolution: PALM/StORM

183–187

12: SIM (Zoom Lecture)

22

Advanced fluorescence imaging: FRAP, FRET, FLIM

117–119

 

24

Holiday: No Class

  

26

Holiday: No Class

 

Holiday: No Lab

29

Total Internal Reflection microscopy, TIRF microscope, Implications;

119–121

 

Dec 1

Finals Review Resources, History of the Microscope

  

3

Question & Answer session

188–198

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

  

13–16

The final exam will be Take-Home