e-learning
Analyse HeLa fluorescence siRNA screen
Abstract
This tutorial shows how to segment and extract features from cell nuclei Galaxy for image analysis. As example use case, this tutorial shows you how to compare the phenotypes of PLK1 threated cells in comparison to a control. The data used in this tutorial is available at Zenodo.
About This Material
This is a Hands-on Tutorial from the GTN which is usable either for individual self-study, or as a teaching material in a classroom.
Questions this will address
- How do I analyze a HeLa fluorescence siRNA screen?
- How do I segment cell nuclei?
- How do I extract features from segmentations?
- How do I filter segmentations by morphological features?
- How do I apply a feature extraction workflow to a screen?
- How do I visualize feature extraction results?
Learning Objectives
- How to segment cell nuclei in Galaxy.
- How to extract features from segmentations in Galaxy.
- How to filter segmentations by morphological features in Galaxy.
- How to extract features from an imaging screen in Galaxy.
- How to analyse extracted features from an imaging screen in Galaxy.
Licence: Creative Commons Attribution 4.0 International
Keywords: HeLa, Imaging
Target audience: Students
Resource type: e-learning
Version: 12
Status: Active
Prerequisites:
- FAIR Bioimage Metadata
- Introduction to Galaxy Analyses
- Introduction to Image Analysis using Galaxy
- REMBI - Recommended Metadata for Biological Images – metadata guidelines for bioimaging data
Learning objectives:
- How to segment cell nuclei in Galaxy.
- How to extract features from segmentations in Galaxy.
- How to filter segmentations by morphological features in Galaxy.
- How to extract features from an imaging screen in Galaxy.
- How to analyse extracted features from an imaging screen in Galaxy.
Date modified: 2024-11-07
Date published: 2019-08-13
Contributors: Thomas Wollmann
Scientific topics: Imaging
External resources:
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