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PDBEB Courses 2020/2021 - Core Technologies @ CNC
January 18 - 29
Coordinator: Luísa Cortes - lcortes@cnc.uc.pt
Doctoral Program in Experimental Biology and Biomedicine (PDBEB) 

2020/2021 Edition

Core Technologies @ CNC
January 18 – 29, 2021

Deadline for registration: January 11, 2021

Maximum number of students: 25

Registration is mandatory here 


Luísa Cortes (lcortes@cnc.uc.pt); CNC, University of Coimbra

Bruno Manadas (bmanadas@cnc.uc.pt); CNC, University of Coimbra
Cátia Santa Cátia Santa (catiajmsanta@gmail.com); CNC, University of Coimbra
Conceição Egas (cegas@biocant.pt); CNC, University of Coimbra
Hugo Froufe (hugo.froufe@biocant.pt); Biocant
Isabel Nunes (inunes@cnc.uc.pt); CNC, University of Coimbra
Isaura Simões (isimoes@biocant.pt); CNC, University of Coimbra
Luisa Cortes (lcortes@cnc.uc.pt); CNC, University of Coimbra
Margarida Caldeira (mcaldeira@cnc.uc.pt); CNC, University of Coimbra
Maria José Simões (mjs@biocant.pt); Biocant
Marta Pinto (mlaranjeiro.pinto@gmail.com); CNC, University of Coimbra
Miguel Mano (mano@ci.uc.pt); CNC & DCV, University of Coimbra
Pedro Curto (pedrocurtobioq@gmail.com): CNC, University of Coimbra
Ricardo Vieira Pires (ricardo.pires@biocant.pt); CNC, University of Coimbra
Sandra Anjo (sandra.isabel.anjo@gmail.com); CNC, University of Coimbra
Susana Pedreiro (susanapedreiro@gmail.com); CNC, University of Coimbra
Tatiana Catarino (tatianacatarino@gmail.com); CNC, University of Coimbra
Vera Mendes (vera3m@gmail.com); 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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