| Code |
16866
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| Year |
1
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| Semester |
S2
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| ECTS Credits |
5
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| Workload |
TP(40H)
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| Scientific area |
Biomedicina/Medicina/Bioquímica
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Entry requirements |
N/A
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Learning outcomes |
On completion of the course, the student is expected to:
- Be familiar with the various basic and advanced fluorescence microscopy techniques used in biomedical research;
- Have acquired the basics of image analysis methods such as digitization, image enhancement, segmentation and feature classification;
- Know how to select the appropriate image acquisition mode for the intended purpose;
- Perform manual and automatic measurements using image analysis tools;
- Perform object tracking;
- Analyze histological tissues;
- Understand the applications and limitations of each technique;
- Know and apply the fundamental notions of ethics in image analysis.
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Syllabus |
Introduction to Fluorescence Microscopy
Optical Sectioning
Live Cell Imaging
Super-Resolution Microscopy
Introduction to ZEN Microscopy Software
Introduction to Image Analysis
Introduction to FIJI Software (Is Just ImageJ)
Hands-On FIJI (Fluorescence Intensity Analysis, Colocalization)
Introduction to Macro Development
Introduction to Imaris Software
Hands-On Imaris (Object Tracking)
Introduction to Deconvolution
Introduction to QuPath Software
Hands-On QuPath (Histological Tissue Analysis)
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Main Bibliography |
- Fluorescence Microscopy: From Principles to Biological Applications, 2nd Edition. Ulrich Kubitscheck (Editor) ISBN: 978-3-527-33837-5 June 2017 Wiley-Blackwell
- Bioimage Data Analysis, Edited by Kota Miura, Wiley-VCH. ePDF ISBN: 978-3-527-80092-6
- Quantitative Imaging in Cell Biology, Methods in Cell Biology, Volume 123 (2014). Editors Jennifer C. Waters & Torsten Wittmann
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Teaching Methodologies and Assessment Criteria |
The course consists of theoretical sessions, hands-on practical sessions on the microscopes used in the microscopy lab, and theoretical-practical image analysis sessions. The theoretical sessions provide the theoretical basis for fluorescence microscopy techniques and the basic concepts of image acquisition and analysis in biomedical research. The hands-on practical sessions on microscopes and the theoretical-practical sessions on image analysis enable the application of the concepts presented in the theoretical sessions and the use of the available tools to build appropriate workflows for a given research objective. Assessment involves the individual application of knowledge in contexts that students will be able to transfer to their own research projects.
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Language |
Portuguese. Tutorial support is available in English.
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