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Quantitative Imaging: From Acquisition to Analysis

  December 29, 2017  

Cold Spring Harbor Laboratory, Cold Spring Harbor, New York
April 4 - 17, 2018

Combining careful image acquisition with rigorous computational analysis allows extraction of quantitative data from light microscopy images that is far more informative and reproducible than what can be seen by eye. This course will focus on advanced quantitative fluorescence microscopy techniques used for imaging a range of biological specimens, from tissues to cells to single molecules. The course is designed for quantitative cell and molecular biologists, biophysicists and bioengineers.

We provide a thorough treatment of the complete process of quantitative imaging, from the photons emitted from the sample to the extraction of biologically meaningful measurements from digital images.  Material is covered in lectures, discussion groups and hands-on quantitative exercises using commercial microscopes and open-source image analysis tools.

Concepts Covered Include:
  • Widefield fluorescence microscopy
  • Laser scanning and spinning disk confocal microscopy
  • CCD, EM-CCD & sCMOS cameras
  • Total internal fluorescence microscopy (TIRF)
  • Light sheet microscopy
  • Super-resolution microscopy (structured illumination, STED & localization microscopy)
  • Imaging and analyzing ratiometric “biosensors” (including FRET)
  • Fluorescent proteins and live sample imaging
  • Image processing (filtering, de-noising, corrections, deconvolution)
  • Image segmentation
  • Quantitative shape and intensity measurements
  • Object detection and tracking
  • Machine learning
  • Designing and troubleshooting quantitative imaging experiments
  • ...and more!
The course will also include a series of seminars from guest speakers who apply the methods we will discuss.
Organized by: Instructors: Jennifer Waters, Hunter Elliott, Suliana Manley Co Instructor: Talley Manley
Invited Speakers:
Teaching Assistants:  Anna Payne-Tobin Jost, Michael Weber, Marcelo Cicconet, Veronica Pessino & Jessica Hornick

2018 Lecturers (more to follow):
Philipp Keller, Janelia Research Campus
Nathan Shaner, The Scintillon Institute
Florian Jug, MPI
Abby Dernburg, University of California, Berkeley
Deadline for Abstracts: January 31 2018
Registration: Apply here 
E-mail: afranco@cshl.edu
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