Kaisa_2012_3_photo by Veikko Somerpuro

24.6.2019 at 12:00 - 30.9.2019 at 23:59


Here is the course’s teaching schedule. Check the description for possible other schedules.

Mon 21.10.2019
10:00 - 12:00
Mon 21.10.2019
12:00 - 13:00
Lecture hall 1BMH seminar
Mon 21.10.2019
13:00 - 14:00
Mon 21.10.2019
14:00 - 17:00
Tue 22.10.2019
09:00 - 16:00
Wed 23.10.2019
09:00 - 16:00


  • The Doctoral Programme in Biomedicine coordinates the course.
  • This is an optional course.
  • The course is part of the Field-Specific Studies module.
  • The course is available to students of other degree programmes.

The course will cover high-content screening pipeline including imaging, image analysis and data processing. The course introduces the analysis of cell cultures using high-content screening and then focuses on image-based screening of hundreds of drugs in patient-derived cancer cells. The goal of the course is to teach the basics and demonstrate the capabilities of high-content screening to the students.

PhD students and MSc (if space). Lectures open for entire scientific community. In the spring term, the course is not organised annually.

The course includes one day symposium and two days of practical demonstrations

Monday 21.10, Biomedicum 1

High-Content Screening Symposium

Full program available: https://www.helsinki.fi/en/news/teaching-studying-at-the-university/high-content-screening-symposium-21.10.2019

Tuesday 22.10, FIMM Biomedicum 2U

High-content screening and QC practicals

09.00-10.00 Lecture, Cornelia Steinhauer, University of Copenhagen

10.00-10.15 Information about practicals and forming groups

10.15-10.45 Intro tour to the core units at FIMM

10.45-11.45 Optimization & automatization of cell seeding

11.45-12.45 Lunch break

12.45-13.30 Breeze and QC data analysis

13.30-16.00 Automated staining and microscopy imaging of multi-well plates (4 groups rotate, ~30min each demo) 1. Demo: Multi-well staining 2. Demo: Imaging with PE Opera Phenix high-content microscope 3. Demo: Imaging with Cytation5 4. Demo: Trouble-shooting session and Coffee

Wednesday 23.10, FIMM Biomedicum 2U

High-content image analysis

09.00-10.00 Lecture, Pekka Ruusuvuori, Tampere University

10.00-10.15 Intro to demos and forming groups

10.15-11.45 Image analysis demonstrations (4 groups rotate, ~45min each demo) 1. Demo: Image analysis using CellProfiler 2. Demo: Cell classification and regression with Advanced Cell Classifier 3. Demo: Image-based profiling using deep learning 4. Demo:

11.45-12.30 Lunch break

12.30-14.00 Demos continue

14.00-15.00 Visit to Aiforia, Machine learning image analysis service demo

Pass/fail, attendance required

Please note, participants will be selected to the course based on the information asked within the registration in WebOodi

Feedback form: https://elomake.helsinki.fi/lomakkeet/99648/lomake.html

The course will be organised as contact teaching (attendance required).