Course Introduction to Fluorescence Microscopy

ECTS: 3.9

Course leader: Lene Niemann Nejsum

Language: English

Graduate school: Faculty of Health

Graduate program: ClinFO

Course fee: 4,680.00 DKK

Status: Course is finished

Semester: Spring 2022

Application deadline: 30/03/2022

Start date: 27/04/2022

Administrator: Annette Poulsen

Course dates changed due to Covid-19

Please be aware that this course has been moved to April/May due to the Covid-19 situation!

The course C267/05 Introduction to Fluorescence Microscopy is being offered by the Graduate School of Health, Aarhus University, spring 2022.

Criteria for participation: University degree in medicine, dentistry, nursing, or Master’s degree in other fields and/or postgraduate research fellows (PhD students and research-year medical students).

Aim: The aim is to give the participants an overview of basic fluorescence microscopy techniques, sample preparation, image acquisition and imaging analysis.

Learning outcomes: The students will obtain basic knowledge of different fluorescence microscopy techniques, sample preparation, image acquisition and image analysis. This should enable students to prepare samples for fluorescence microscopy, choose the appropriate microscope setup, acquire images, analyze images and generate publication figures. This will enable students to participate in research projects involving fluorescence microscopy.


  • Overview of basic light and fluorescence microscopy methods including white light microscopy, wide-field fluorescence microscopy and confocal microscopy as well as optics, cameras and photodetectors.
  • Introduction to sample preparation of cells and paraffin embedded tissue sections for fluorescence microscopy (hands on).
  • Introduction to image analysis using ImageJ Fiji; this includes working with multicolor images, background handling and fluorescence quantification (hands on) and
  • Practical demonstration/hands-on of wide-field fluorescence image acquisition using an inverted, automated microscope.
  • There will be a mandatory home assignment equivalent to 0.6 ECTS.

Recommended knowledge for participation: This is an introductory course, so no experience with fluorescence microscopy is necessary

Instructors: Assistant Professor Frédéric H. Login, post doc Mikkel Carstensen, PhD student Christina V. Ernstsen, PhD student Sarannya E, PhD student Stine Julie Tingskov, PhD student Michael Skou Jensen, PhD student Jean-Claude Kresse

Venue: The Victor Albeck building and adjacent laboratory facility 

Participation in the course is without cost for:

  • PhD students, Research Year students and Research Honours Programme students from Aarhus University
  • PhD students enrolled at partner universities of the Nordoc collaboration
  • PhD students from other institutions in the open market agreement for PhD courses

Please note that there will only be lessons 2 hours per group on day 4 or 5 (3 and 4 May); it is not two whole days of teaching! The groups will be decided on course start.

Course dates:

  • 27 April 2022 08:30 - 16:00
  • 28 April 2022 08:30 - 16:00
  • 29 April 2022 08:30 - 16:00
  • 03 May 2022 10:00 - 16:00
  • 04 May 2022 10:00 - 16:00
  • 11 May 2022 08:30 - 17:00