Quantitative Imaging: From Acquisition to Analysis
QI is an annual two-week intensive course at Cold Spring Harbor Laboratory that is focused (pun intended!) 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 cell and molecular biologists, biophysicists and bioengineers looking to learn quantitative imaging approaches.
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.
Course dates: March 24 – April 7, 2020
Application deadline: January 31, 2020
Why choose QI?
- We (the course organizers) are core facility imaging scientists from Harvard Medical School who have tons of experience teaching microscopy
- We have seminars and lectures from rockstar PIs who are making important contributions to imaging AND are excellent, enthusiastic teachers
- We only accept 16 students, so we can maintain high faculty:student and microscope:student ratios
- We have a strong emphasis on quantitation and modern image analysis methods
- Confocal, TIRF, super-res & light sheets: we have all kinds of scopes, and you get to play with them
QI was co-founded by Jennifer Waters & Torsten Wittmann in 2011. Jennifer taught in the AQLM course at the MBL for 9 years before she was invited by CSHL to establish QI. She has developed and taught many courses and workshops over her 18 years teaching microscopy at Harvard.
We teach you:
- 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
QI Organizers / Instructors
The QI Organizers/Instructors develop the course content, give the majority of the educational lectures in the course, and invite/host the speakers listed in the next session. Instructors are there for the entire course.
QI Laboratory Director
Lab exercises are a critical component of QI, and Anna makes it all happen.
The QI Co-Instructors give both educational lectures and seminars. They’re around for ~half the course.
Our awesome TAs:
Under the fearless leadership of Anna, the QI TAs help develop, test and teach the laboratory exercises, and prepare all the samples. They are all awesome imaging scientists and teachers.