Protein Bioinformatics: Sequence-Structure-Function

Date 25 - 28 January 2016
Speaker(s) Amos Bairoch, Marie-Claude Blatter, Lorenza Bordoli, Geoffrey Fucile, Elisabeth Gasteiger, Pascale Gaudet, Ivo Pedruzzi, Torsten Schwede, Christian Sigrist, Christian von Mering
ECTS 1
Fees *academic: 200 CHF   -   for-profit: 0 CHF
Cancellation deadline 15 Jan 2016
City Basel
*academic fee includes non for-profit organisations as well as unemployed participants at the time of application.

 

Overview

Sequence-structure-function relationships of proteins are central to a comprehensive understanding of cellular biology. However, many proteins lack direct and detailed information regarding structure, function, and complex formation. This knowledge gap can be overcome through clearly defined relationships between proteins and the integration of existing data.

Participants will be introduced to primarily web-based tools, designed for life scientists without substantial computational training, for integration and inference of protein structure and function data. The lectures and workshops will be led by the SIB developers of these methods, with specific emphasis on translating this training to the participants' own research questions culminating in a "bring your own protein(s)" workshop.

Audience

This course is intended for a wide audience covering Master and PhD students, post-docs, and senior researchers in all areas of life science.

Learning objectives

At the end of this course, participants are expected to be able to:

  • identify proteins related by sequence and/or structure and integrate functional annotations from public databases
  • develop homology models of protein structure, assess their quality, and make inferences regarding function and regulation
  • integrate and interpret protein-protein interaction data
  • apply these methods to their own proteins of interest

Prerequisites

Participants should bring a laptop with wireless connectivity and make sure they have the permission to install software if necessary. Knowledge of UNIX is not necessary.

Application

The registration fees for academics are 200 CHF. This includes course content material, coffee breaks, and a social dinner. Participants from non-academic institutions should contact us before application.

Upon reception of the confirmation email, participants will be asked to confirm attendance by paying the fees within 5 days.

Deadline for registration and free-of-charge cancellation is set to January 15, 2016. Cancellation after this date will not be reimbursed. Please note that participation to SIB courses is subject to this and other general conditions, available here.

You will be informed by email of your registration confirmation. Upon reception of the confirmation email, participants will be asked to confirm attendance by paying the fees within 5 days.

Location

University of Basel, Biozentrum, room 106 and Kaktuslounge

Additional information

Coordination: Geoffrey Fucile

You are welcome to register to the SIB courses mailing-list to be informed of all future courses and workshops, as well as all important deadlines using the form here.

For more information, please contact training@sib.swiss.


Schedule

Monday January 25th

Using sequence centered resources through the web and some of the tools used for annotation (BLAST, ExPASy, UniProt, practicals)

Tuesday January 26th

Protein structure: Going 3D! (Intro to protein structures and databases, homology modelling and quality estimation/validation, practicals)

Wednesday January 27th

Using sequence centered resources through the web and some of the tools used for annotation (standardization resources, InterPro, GO, PROSITE, HAMAP, neXtprot, practicals)

Social Dinner

Thursday January 28th

Protein-Protein Interactions (STRING, practicals)

"Bring your own protein(s)!"


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