May 6 - 10, 2019 
Coordinators:

Bruno Manadas (bmanadas@gmail.com),

Isaura Simoes (isimoes@biocant.pt)

Sandra Anjo (sandra.isabel.anjo@gmail.com)

Proteins are key elements for the normal function of a living cell. The proteome can be defined as the set of proteins produced in an organism, system, or biological context; therefore, the proteome differs from cell to cell and changes over time. Moreover, protein activity is also modulated by many factors in addition to their expression level, including post-translational modifications and proteins interactions. In this sense, proteomics-based approaches are extremely useful tools to address biomedical questions.

Proteomics methodologies aim to analyze a large number of proteins within a certain set of samples of an experiment. These approaches can deliver different types of data, such as identification of the protein in a sample at a given moment, expression levels of the proteins (quantitative proteomics), identification and quantification of post-translational modifications (PTM), and protein interactions (for example protein-protein interactions).

The technological advances in mass spectrometry approaches observed in the last years, allows a deeper and more comprehensive characterization of the proteomes in a high-throughput manner resulting in the generation of huge amounts of data. Therefore, the developments in the proteomics field were only possible due to the advances observed at computer sciences that are now able to deal with the large amount of information generated in a proteomic study.

The course will dedicate special emphasis to:

      -Mass spectrometry approaches used to proteomics analysis;

     -Untargeted proteomics screenings, proteomics applied to biomarker discovery, translational omics, and clinical omics;

       -Other omics - a brief overview of phosphoproteomics, redoxomics and interactomics;

       -Integrative analysis of proteomics data including phosphoproteomics and other PTMs;

      -Proteomics for the analysis of proteolytic events: PICS, N-terminal degradomics, Targeted-degradomics.

International Invited Speakers:

       Dr. Pedro Beltrao, from the European Bioinformatics Institute (EMBL-EBI)

       Dr. Ulrich auf dem Keller, from the Technical University of Denmark (DTU);

       Dr. Sriram Aravamudhan, Proteomics Product Manager from Cell Signaling Technology.

Registration Info
 

Attendance is limited to 20 participants (for BEB students additional vacancies will be made available). PhD students enrolling in other Doctoral programs can request a 3 ECTS certificate.

To apply, please, use the online registration form. Applications are open until 3^rd May first-come, first-served.

All the applicants are requested to complete a registration form. The applicants who would like to participate in the poster session are requested to upload an abstract.

Fees*: 100€ (Includes coffee breaks and meeting materials).

Note: Course fees do not apply to students enrolled in BEB and other UC PhD programmes (but all students must complete the registration form) .

Bank information

Name: Centro de Neurociencias e Biologia Celular

Bank name: Banco Santander Totta SA

IBAN: PT50001800010020200611888

NIB: 001800010020200611888

SWIFT/BIC Code: TOTAPTPL

* Please upload proof of bank transfer to bmanadas@gmail.com.

Identify clearly your name when ordering the transfer and send us a copy of the transfer receipt by email to bmanadas@gmail.com.

Accommodation requirements:

Please contact the organization for accommodation information.

Poster information:

Format: 70 x 100 cm, portrait orientation

Monday  - Mass spectrometry applied to proteomics analysis (Bruno Manadas & Sandra Anjo)

-Biological need, Sample prep, data acquisition, data analysis, including PTM identification

Tuesday - Untargeted proteomics screening for biomarker discovery, translational omics and clinical omics (Bruno Manadas & Sandra Anjo, Isaura Simoes, Catia Santa)

-Quantitative proteomics data acquisition and data analysis (Bruno Manadas and Sandra Anjo)

-Practical cases on differential proteomics studies, translational omics, and biomarker discovery (Bruno Manadas, Sandra Anjo, Catia Santa)

-Using SWATH-MS to understand host-pathogen interactions - Isaura Simoes

Wednesday Other omics -brief overview of redoxomics, interactomics, (Sandra Anjo & Isaura Simoes)

Morning sessions - Redoxomics and Interactomics - Sandra Anjo

Afternoon session: Deciphering signal transduction using PTMScan: An affinity proteomics method for quantitative profiling of post-translational modifications - Sriram Aravamudhan, Cell Signalling

Thursday Integrative analysis of phosphoproteomics data (and other PTMs)

9h15 - 11h15 Introduction to machine learning - Pedro Beltrao

11h30m -12h 30m - Evolution and functional relevance of protein phosphorylation - Pedro Beltrao (seminar)

14-16- Computational approaches to study protein post-translational regulation - Pedro Beltrao

16-18 poster session

Friday Proteomics for the analysis of proteolytic events: PICS, N-terminal degradomics, Targeted-degradomics

Morning session: Advanced protease degradomics technologies - Ulrich auf dem Keller

Seminar : Protease networks in skin inflammation and repair - Ulrich auf dem Keller

Afternoon session: Protease degradomics data analysis: tools and strategies-  Ulrich auf dem Keller

Students evaluation