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Home » Courses » Microscopy Series

Microscopy Series

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Course Directors: Ron Vale, Nico Stuurman, and Kurt Thorn

Light microscopy has become one of the most useful tools in the life sciences. This free online comprehensive series begins with the basics of optics, proceeds through transmitted light microscopy, covers the various methods of imaging fluorescent samples, describes how cameras work and image processing, and concludes with some of the latest advances in light microscopy. In addition to lectures, we also provide labs (filmed at a microscope) and short tips, so as to cover pragmatics of how to use microscopes. Assessments are provided for each lecture. Enjoy learning microscopy! Note that each section header is a link and will lead to additional videos not displayed on this page. 

SEE FULL TABLE OF CONTENTS FOR THE SERIES >>

Introduction

  • Light Microscopy Ron Vale

    Historical contributions from light microscopy

  • History of Early Microscopes: Joe Gall.

    History of Early Microscopes

Image Formation

  • Daniel Fletcher: Lenses and Image Formation

    Refractive Lenses and Image Formation

  • Stephen Ross

    Objective Lenses and Eyepieces

  • Diffraction (Jeff Lichtman)

    Huygens Wavelets Constructive/Destructive Interference, and Diffraction

  • Point Spread Function (Jeff Lichtman)

    Point Spread Function

  • Resolution (Jeff Lichtman)

    Resolution of a Microscope

  • Microscopy: Microscope Imaging and Koehler Illumination (Ron Vale

    Microscope Imaging and Koehler Illumination

See more »

Contrast Generation for Transmitted Light

  • Darkfield and Phase Contrast Microscopy (Edward Salmon)

    Darkfield and Phase Contrast Microscopy

  • Shinya Inoue Polarized Light and its Interaction with Material

    Polarized Light and its Interaction with Material

  • Polarization (Edward Salmon)

    Polarization Microscopy

  • Differential Interference Contrast (DIC) Microscopy Edward Salmon

    Differential Interference Contrast (DIC) Microscopy

  • Examples of Using Polarization Microscopy: Shinya Inoue

    Examples of Using Polarization Microscopy

  • Phase, Polarization, and DIC Stephen Ross

    Phase, Polarization, and DIC Microscopy Lab

See more »

Fluorescence Microscopy

  • Introduction to Fluorescence Microscopy

  • Timothy Mitchison Fluorescent Probes.jpg

    Fluorescent Probes: Organic Dyes and Quantum Dots

  • Roger Tsien: Fluorescent Proteins

    Fluorescent Proteins and the Story Behind GFP

  • Roger Tsien Fluorescent Protein Indicators

    Fluorescent Protein Indicators

  • Microscopy: Two Photon Microscopy (Kurt Thorn

    Two-Photon Microscopy

  • Light Sheet Sectioning (Ernst Stelzer)

    Light Sheet Sectioning

See more »

Robotics, Detection and Image Analysis

  • Cameras and Detectors I: How Do They Work? Nico Stuurman

    Cameras and Detectors I: How Do They Work?

  • Nico Stuurman on iBiology: Microscopy

    Cameras and Detectors II: Specifications and Performance

  • Kurt Thorn on iBiology: Digital Imaging

    Introduction to Digital Images

  • Image Analysis Kurt Thorn

    Image Analysis

  • Deconvolution Microscopy (David Agard)

    Deconvolution Microscopy

  • Software Control of Microscopes Nico Stuurman

    Using Software to Control Microscopes

See more »

Specialized Microscopy

  • OpticalTraps An Introduction Carlos Bustamante

    Optical Traps: An Introduction

  • High Throughput Microscopy (Jan Ellenberg)

    High Throughput Microscopy

  • Array Tomography (Stephen Smith)

    Array Tomography

  • Mark Schnitzer

    Miniature Microscopes for Deep Tissue Imaging

  • Optogenetics (Karl Deisseroth

    Optogenetics: The Use of Opsin Genes in Technique Development

  • Daniel Fletcher Microscopy

    Mobile Microscopy

See more »

List of Speakers

Daniel Axelrod (University of Michigan)
Philippe Bastiaens (Max Planck Institute)
Carlos Bustamante (UC Berkeley/HHMI)
Karl Deisseroth (Stanford/HHMI)
Jan Ellenberg (European MBL)
Daniel Fletcher (UC Berkeley)
Joseph Gall (Carnegie Institution)
Stefan Hell (Max Planck Institute)
Bo Huang (UCSF)
Shinya Inoue (MBL)
Jennifer Lippincott-Schwartz (NIH)

Jeff Lichtman (Harvard)
Timothy Mitchison (Harvard)
Stephen Ross (Stanford)
Edward Salmon (University of North Carolina)
Mark Schnitzer (Stanford/HHMI)
Stephen Smith (Stanford)
Nico Stuurman (UCSF)
Roger Tsien (UCDS/HHMI)
Kurt Thorn (UCSF)
Ron Vale (HHMI/UCSF)
Clare Waterman (NIH)
Xiaowei Zhuang (HHMI/Harvard)

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This material is based upon work supported by the National Science Foundation and the National Institute of General Medical Sciences under Grant No. 2122350 and 1 R25 GM139147. Any opinion, finding, conclusion, or recommendation expressed in these videos are solely those of the speakers and do not necessarily represent the views of the Science Communication Lab/iBiology, the National Science Foundation, the National Institutes of Health, or other Science Communication Lab funders.

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