Proteomics Bioinformatics

Run jointly with EMBL-EBI, this workshop provides hands-on training in
the basics of mass spectrometry and proteomics bioinformatics, search
engines and post-processing software, quantitative approaches, MS data
repositories, the use of public databases for protein analysis,
annotation of subsequent protein lists and incorporation of information
from molecular interaction and pathway databases.

The workshop is aimed at research scientists with a minimum of a degree
in a biological discipline, including laboratory and clinical staff, as
well as specialists in related fields. The practical elements of the
course will take raw data from a proteomics experiment and analyse it.
Participants will be able to go from MS spectra, to identifying peptides
and finally to lists of protein identifiers that can be analysed further
using a wide range of resources. The final aim is to provide attendees
with the practical bioinformatics knowledge they need to go back to the
lab and process their own data (including large datasets) when collected.

The course will be taught by trainers from the European Bioinformatics
Institute and will include seminars from distinguished guest speakers.

Feedback from the 2014 workshop
“This course gave me the basic knowledge that will help me to
properly conduct our planned experiments.”
“The course was really good at packing a lot of information into the 5
days and covering enough to make it relevant for most people. That can’t
be easy.”
“Once again, thank you very much for the opportunity to partake in a
course of this high standard. I have no doubt that it will help me
immensely in my current and future career.”

The programme will include lecture and practical, computational sessions
covering the following topics:

• Mass Spectroscopy Basics
• MS Search Engines and post-processing software
• Quantitative proteomics
• Protein sequence databases and their use
• Protein sequence data in UniProt
• Proteomics data and services integration
• Post-translational modifications
• Standardisation of proteomics data
• MS proteomics repositories and the ProteomeXchange consortium
• PRIDE and PRIDE related tools
• Proteogenomics
• Protein interaction data through IntAct and the IMEX consortium
• Functional analysis of proteins using Cytoscape
• Placing proteins in pathways using Reactome

Scientific Organising Committee
Juan A. Vizcaíno (EMBL-EBI, UK)
Lennart Martens (Ghent University and VIB, Belgium)
Laura Emery (EMBL-EBI, UK)

The course will be taught by trainers from the European Bioinformatics
Institute

Guest speakers
Dr Jyoti Chaudhary Wellcome Trust Sanger Institute,
UK
Dr René P. Zahedi Leibniz – Institut für Analytische
Wissenschaften – ISAS – e.V.

Prerequisites
The workshop is aimed at research scientists with a minimum of a degree
in a biological discipline, including laboratory and clinical staff, as
well as specialists in related fields.

Cost
The
course is subsidised by the Wellcome Genome Campus Advanced Courses
and Scientific Conferences Programme. This is a residential
course and
there is a fee of £575 towards board and lodging for non-commercial
applicants. Please contact us for the commercial fee.

Applications
Applications for this course can be completed online. If you have any
problems with the online application process, please contact us.

Please note: Applications
must be supported by a
recommendation from a scientific or clinical sponsor (e.g. supervisor or
head of department). A request for a supporting
statement will be sent
to your nominated sponsor automatically during
the application process.
Applicants must ensure that their sponsor
provides this supporting
statement by the application deadline. Applications without a supporting
statement cannot be considered.

Deadlines
Deadline for Applications: Closed

Bursaries
Advanced Courses are subsidised for non-commercial
applicants from anywhere in the world. Additional, limited bursaries are
available (up to 50% of the course fee) and are awarded on merit. If you
would like to apply for a
bursary, please complete the bursary section
of the online application
form.

Please note that both the applicant
and sponsor are required to provide
a justification for the
bursary as part of the application.

Bursary terms and conditions

UK Courses (held at the Wellcome Genome Campus, Hinxton,
Cambridge)
A
limited number of bursaries are available for each course. These are
awarded by the selection committee according to merit. The bursary
covers a maximum of 50% of the course fee, though in exceptional
circumstances an application for the total course fee may be considered.
Where there are many bursary applications, the selection committee may
issue smaller amounts. We cannot assist with travel costs to attend UK
courses.

Overseas Courses (held outside of the UK)
A
limited number of bursaries are available for each course. These are
awarded on merit to cover travel, accommodation and sustenance. The
maximum award for travel (economy class) will be £750.

Bursaries can be applied for as part of the course application form.
Applicants
will be notified of a bursary award along with their place on
the
course, usually within one month of the application deadline. The
decision of the selection committee is
final.