Where Ideas Grow

Advanced Light Microscopy

The Advanced Light Microscopy (ALM) is the i3S scientific platform specialized in state-of-the-art optical microscopy to study cellular systems in biosciences research areas like cell biology, oncobiology, neurobiology immunology and biomaterials. Here you get expertise and open access to high-end advanced fluorescence microscopy resources for multidimensional imaging of cells and tissues, live cell imaging, functional and molecular imaging and bio-image data analysis. We have large expertise in a broad range of techniques including transmission microscopy (ex. brightfield, phase contrast, DIC), fluorescence widefield and laser scanning confocal microscopy (ex. 6D imaging, FRAP, FRET), TIRFM and digital image analysis.

The unit offers scientific advice in experimental planning, training in hands-on operation of the equipment and in image analysis, as well as scientific consulting in research projects development. We are committed to increasing the knowledge in bioimaging of scientific and industrial communities. With that goal in mind, we organize several post-graduation courses in light microscopy and image analysis. The ALM is a node of the national research infrastructure PPBI-Portuguese Platform of BioImaging.

Platform Head



Image analysis software

ImageJ / Fiji


Huygens (Nyquist rate calculator)









Laser Point Scanning Confocal System

Leica TCS SP5

Leica TCS SP8


Widefield upright microscopes

Zeiss Axio Imager Z1

Zeiss Axio Imager Z1 Apotome


Widefield inverted microscopes

Leica DMI6000 FFW

Leica DMI6000 Timelapse


Spinning Disk Confocal System

Andor Revolution XD


Digital Scanning Light-sheet Fluorescence Microscope

Digital Scanning Lightsheet Fluorescence Microscope (dSLFM)


Other systems

Nikon Ti TIRF


  • Open-access to light microscopy equipment
  • Open-access to workstations and specialized software for bioimage analysis
  • Scientific advisement in experiment planning
  • Advisement and support in bioimage analysis
  • Hands-on training on equipment operation



Fees apply for use of ALM resources (price information soon available)


PPBI – Portuguese Platform of BioImage


ELMI - European Light Microscopy Iniciative


NEUBIAS – Network of European BioImage Analysts (COST action CA15124)


COMULIS - Correlated Multimodal Imaging in Life Sciences (COST action CA17121)