Topic outline

  • General

    Searching for sequences: introduction to databases and sequence analysis tools

    Fribourg, 28 August 2014

    Overview

    This one day workshop will cover the practical use of sequence databases and tools to discover and extract DNA and protein sequences.
    Participants will learn more about NCBI RefSeq, ENA, SRA, UniProtKB, ENSEMBL, Blast, ExPASy, etc...

    Requirements

    Skills requirements: none

    Material requirements: The course will consist of theory and practical exercises. Participants should bring their own laptops with at least 4Gb RAM and WIFI capable.

    Application

    Application is closed. The course is full.
    Please note that the participation to this workshop costs Frs 50.- to cover material and coffee breaks. Participants from non-academic institutions should contact us.

    Deadline for registration and cancellation is set to the 15th of August 2014.

    Location

    You can reach it (stop "Charmettes") by bus Nr 1, 3 or 7 from the train station (5min) or by walking (15min).

    Additional information

    The course will be taught by Dr Laurent Falquet.

    No exam planned.

    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@isb-sib.ch

    • Schedule Part 1

      9:15 Welcome

      9:30 Quick introduction to public databases (DNA and Proteins)

      10:00 Practical 1: Sequence searching with keywords

      10:30 Coffee break

    • Part 2

      11:00 Sequence searching with other sequences

      11:30 Practical 2: BLAST and BLAT, PSI-BLAST

      12:30 Lunch break

    • Part 3

      13:30 Genome Browsers (ENSEMBL, UCSC) and their tools

      14:00 Practical 3: Sequence searching with BioMart

      15:00 Coffee break

    • Part 4

      15:30 Users own problems in sequence searching

      17:00 Farewell