Advanced Optical Fluorescence Microscopy & Image Analysis Course, May 3-17, 2022
ADM offers a 11 hours course on Advanced Optical and Fluorescence Microscopy and Image Analysis.
This course targets Phd students, Postdocs and research staff from IRB Barcelona and institutions at the PCB, and will be held in person.
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.
Participation to all 5 sessions is compulsory / strongly expected for all confirmed participants.
The course capacity is about 60 seats.
Attendance is expected for all days of the course for people who register.
Registration will be prioritized this way:
- IRB research staff: automatic confirmation, first-come first-served.
- research staff from public institutions at the PCB: upon availability of seats, first-come first-served, confirmation by April 22.
- research staff from other public institutions: upon availability, confirmation by April 25.
- research staff from private entities: upon availability, selection case-to-case, priority given to users of the IRB facility. Confirmation by April 25.
Access the Registration Form here (fully booked)
Speakers/Trainers:
Lídia Bardia, Anna Lladó, Nikolaos Giakoumakis, Sébastien Tosi, Julien Colombelli
Where: Sala Serratosa, Parc Científic de Barcelona PCB (C. Baldiri Reixac, 10. 08028 Barcelona)
PRELIMINARY Program (Subject to changes)
May 3rd, 12h-14h
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
Hyperspectral imaging
Laser Safety: basic concepts
May 5th, 15h-17h30
Day 2 Nano-scale & Molecular Imaging
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.
Photomanipulation I: Fluorescence Recovery After Photobleaching (FRAP)
How to tackle molecular kinetics with FRAP ?
Data Analysis, EasyFRAP
Super resolution (SR) / Nanoscopy
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 10th, 12h-14h
Day 3 Meso-scale and High-Content
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
High-Content and High-Throughput Microscopy
Multidimensional Acquisition
Preparation of a High-content experiment
High-content Confocal Imaging
Intelligent Imaging
May 12th, 15h-17h30
Day 4 Image Analysis in Life science - Part I
Introduction to BioImage Analysis (BIA): motivations and aims
Commonly used software tools and typical workflows
Selection of projects/examples including advanced bioimage analysis
Practical Introduction to ImageJ /Fiji
May 17th, 12h-14h
Day 5 Image Analysis in Life science - Part II
Fundamentals: digital images & filters, image segmentation, binary mask processing, ...
Advanced Bioimage Analysis Exercises (hands-on, demo)