Docent lecture: Image Analysis of Biological Processes – Concepts and Developments

  • Date: –11:00
  • Location: Polacksbacken 1211, ITC
  • Lecturer: Anna Klemm
  • Organiser: Department of Information Technology, division of visual information and interaction
  • Contact person: Anna Klemm
  • Docentföreläsning

In this lecture I will talk about how a digital image is formed and introduce basic strategies of how to perform measurements automatically.

Microscopy is a key technology driving biological discovery. Technical developments in microscopy have allowed to study cells in the context of their tissue surrounding (imaging of whole tissue slices), over time (cell tracking, lineage tracing), after treatment with various drugs (drug screening), or in the context of populations (imaging flow cytometry of a blood sample). Nowadays, microscopy based scientific findings must be substantiated by quantitative image analysis. Complex biological processes like cell migration or tissue formation have to be quantified for statistical hypothesis testing.

In this lecture I will talk about how a digital image is formed and introduce basic strategies of how to perform measurements automatically. I will introduce the basic concepts of thresholding, filtering, and pixel classification. I will then present recent applications of bioimage analysis in life-science research and demonstrate a selection of widely-used free and open-source software packages. Using these software packages, it is important to document how the image data was evaluated. This allows open and reproducible research. I will talk about how to report image analysis workflows. Finally, I will present cases of misuse and the effect of the misuse on the scientific community.

The lecture is an obligatory teaching test for those applying for admittance as docent and it should be possible for students and others with basic academic education in the relevant field to follow it. The lecture will last for 45 minutes and afterwards the audience may ask questions. The lecture will be given in English.