Advanced Optical Fluorescence Microscopy & Image Analysis Course, May 18- June 1, 2021
ADM offers a 13 hours course on Advanced Optical and Fluorescence Microscopy, including Image Analysis.
This course targets Phd students, Postdocs and researchers from IRB and institutions at the PCB, and will be held this year online via Zoom.
Registration is based on first come first served.
Attendance is strongly recommended for 1st year Phd candidates at IRB, who have guaranteed seat in the course.
Attendance to the 5 sessions is expected for all registrants.
The course capacity is 95 seats (our Meeting limit via Zoom).
Attendance is expected for all days of the course for people who register.
Access the Registration Form here:
Speakers/Trainers:
Lídia Bardia, Anna Lladó, Nikolaos Giakoumakis, Sébastien Tosi, Julien Colombelli
Where: Online via Zoom (links will be sent for each day to registered participants)
PRELIMINARY Program (Subject to changes)
May 18th, 9h30-12h
Day 1 Image Formation and 3D Imaging
Optical Microscopy: Contrasts
Fluorescence: Basics of photophysics
Laser Scanned Confocal Microscopy principles
Detectors
Resolution in Optical Microscopy
3D Imaging contrasts: Speed or Resolution ?
Multiphoton Microscopy, Spinning Disk, Airyscan
More Optical Sectioning modalities: special techniques
Second Harmonic Generation, Spectral Detection, TIRF
Laser Safety: basic concepts
May 20th, 9h30-12h30
Day 2 From Meso- to Nano-scale: Lightsheet and Super-resolution
SPIM/LSFM: Single Plane Illumination Microscopy or Lightsheet Fluorescence Microscopy
Lightsheet imaging principles
Live Imaging with LSFM and variants: SPIM, DSLM, Oblique Plane Microscopy (OPM)
Optical Clearing for large samples
Large Samples Imaging with cleared organs
Super resolution (SR)
Resolution concepts, revisited with SR
SIM: Structured Illumination Microscopy
ISM: Image Scanning Microscopy, including Airyscan
Expansion Microscopy
SMLM: Single Molecule Localization Microscopy
PALM, STORM, Paint etc...
SMLM Analysis
Correlative Light to Electron Microscopy (CLEM)
May 25th, 9h30-12h
Day 3 Image Analysis in Life science
FRET / FLIM
Protein Interaction with FRET
Acceptor Photobleaching, Sensitized Emission and Ratio Imaging
Lifetime of a fluorophore
Lifetime-based FRET
sm: single molecule techniques:
Time Correlated Single Photon Counting (TCSPC)
sm dynamics for FRET.
FCS and FCCS: ensemble and sm molecular diffusion.
Anisotropy, HomoFRET.
Photomanipulation I: Fluorescence Recovery After Photobleaching (FRAP)
How to tackle Molecular kinetics with FRAP ?
FRAP on various instruments at ADM
Data Analysis, EasyFRAP
Photomanipulation II: In vivo Laser Nanosurgery
High-Content and High-Throughput Microscopy
Multidimensional Acquisition
Preparation of a High-content experiment
Intelligent Imaging
May 27th, 9h30-12h
Day 4 Image Analysis in Life science - Part I
Introduction to BioImage Analysis (BIA): motivations and aims
Commonly used software tools and typical workflows
Foundations: digital images & filters, image segmentation, binary mask processing
Selection of projects including advanced bioimage analysis at ADMCF
June 1st, 9h30-12h
Day 5 Image Analysis in Life science - Part II
Introduction to ImageJ /Fiji
Image deconvolution
Image stitching & visualization of large images
Introduction to Machine Learning & Deep Learning