PHD Programme in

Experimental Biology and Biomedicine


PDBEB Courses 2020/2021 - Core Technologies @ CNC

Organized by

Without Information

Date & Time

18/01/2021 - 29/01/2021


No mandatory

Deadline : 29/01/2021




Bruno Manadas (; CNC, University of Coimbra
Cátia Santa Cátia Santa (; CNC, University of Coimbra
Conceição Egas (; CNC, University of Coimbra
Hugo Froufe (; Biocant
Isabel Nunes (; CNC, University of Coimbra
Isaura Simões (; CNC, University of Coimbra
Luisa Cortes (; CNC, University of Coimbra
Margarida Caldeira (; CNC, University of Coimbra
Maria José Simões (; Biocant
Marta Pinto (; CNC, University of Coimbra
Miguel Mano (; CNC & DCV, University of Coimbra
Pedro Curto ( CNC, University of Coimbra
Ricardo Vieira Pires (; CNC, University of Coimbra
Sandra Anjo (; CNC, University of Coimbra
Susana Pedreiro (; CNC, University of Coimbra
Tatiana Catarino (; CNC, University of Coimbra
Vera Mendes (; CNC, University of Coimbra

Date: January 18 - 29, 2021

Location: UC-Biotech and CNC (FMUC, POLO I building)

The aim of this course is to provide an overview of the technological platforms available at CNC.
This two-week course will focus on the principles and high-end applications of the different methodologies and students will gain a theoretical understanding and hands-on experience on state-of-the-art equipment and on data processing and analysis.



Week I – 18th-22nd January 2021 – UC-Biotech

Monday, 18th January 2019
9h30 - Welcome Session – Luisa Cortes (UC-Biotech Auditorium)

Transcriptomics to characterize cellular mechanisms: RNA-Seq (UC-Biotech)
10h00 -11h20 - RNA-Seq: NGS and experimental design
11h40 – 13h00 - RNA-Seq analysis. Data processing and analysis

High-throughput/high-content screening (UC-Biotech)
14h00-15h00 - High-throughput/high-content screening: from basic principles to emerging technologies
15h00-16h00 - Case studies: from phenotypic screenings to biological knowledge
16h30-17h30 - Lab tour: overview of sample processing, image acquisition, image analysis workflows

Tuesday, 19th January 2021
Recombinant protein expression and purification (UC-Biotech)
09h30-10h45 - Cloning strategies: the old and the new
11h15-12h30 - Protein expression and purification: there is no such thing as a “one size fits all solution”
14h00-17h30 – Data analysis and discussion of case studies

Wednesday, 20th January 2021
R&D Antibodies (UC-Biotech)
9h30-10h30 - Developing antibodies for research, diagnostics and therapy using birds
11h00-12h00 - Visiting CNC’s Avian Facility

Mass Spectrometry (UC-Biotech)
14h00 - Introduction to Mass Spectrometry and Liquid chromatography coupled to Mass spectrometry
-  Quantification by Mass Spectrometry (Targeted and Untargeted approaches) - Vera Mendes
- Introduction to LC-MS/MS based proteomics
- Drug induced neuroproteomic changes
- Translational biomarker research

Thursday, 21st January 2021
Flow Cytometry
10h00 - 11h00: Principles of flow cytometry
11h15 - 12h00:  Flow Cytometry applications
14h00 - 15h00: Fluorescence-activated cell sorting (FACS): principles and applications
15h00 – 17h30: Hands on cell sorting session – Susana Pedreiro

Friday, 22nd January 2021
10h00 - 13h00 - Hands on cell sorting session and analysis– Susana Pedreiro
14h00 - 17h00 - Hands on cell sorting session and analysis– Susana Pedreiro

Week II – 25th- 29th January –  CNC polo I

Monday, 25th January 2021
Fluorescence Microscopy
 9h30 - 10h30: Fundamentals of Fluorescence Microscopy
11h00 - 12h00: Optical Sectioning
14h00 - 15h30: Live Cell Imaging
16h00 - 18h00: Overview of Widefield Microscope

Tuesday, 26th January 2021
Fluorescence Microscopy
9h30 - 10h30: Tips and Tricks on Fluorescence Microscopy
11h00 - 13h00: Overview of Confocal Microscope
14h30 - 15h30: Tissue Clearing
16h30 - 18h30: Overview of Spinning-Disk Confocal Microscope

Wednesday, 27th January 2021
Fluorescence Microscopy
9h30 - 13h00: Hands on microscopy sessions
14h00 - 18h30: Hands on microscopy sessions

Thursday, 28th January 2021
Fluorescence Microscopy
9h30 - 13h00 - Hands on microscopy sessions
14h00 - 15h00 – Introduction to IMARIS software
15h00 - 16h00 – Introduction to deconvolution with Huygens software
16h30 - 18h30 - Fundamentals of Imaging Processing with FIJI

Friday, 29th January 2021 – UC-Biotech
14h30 - 17h00: Students Presentations

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