ECCB 2014 tutorial T01
Analysis of Cis-Regulatory Motifs from High-Throughput sequences

Schedule

08:00-09:00 Registration and configuration of participants' laptops (networkw access)
09:00-10:30 Session 1: Analysis of cis-regulatory elements with the Regulatory Sequence Analysis Tools (RSAT): methods and website utilization (http://www.rsat.eu/).
10:30-10:45 Coffee break
10:45-12:00Session 1 (continued)
12:00-13:30Lunch
13:30-16:00Session 2: Using RSAT in command-line (Unix terminal via ssh connection)
16:00-16:20Coffee break
16:20-18:00Session 3: Writing client scripts for RSAT web services.

Contents

Configuration of participants' laptops (8:00 - 9:00)

  1. Laptop configuration.
  2. Checking your access to the IFB cloud
    (Beware: account should have been obtained before the tutorial).
  3. Opening your own RSAT server on the IFB cloud.
  4. Installing an RSAT Virtual Machine on your computer
    (optional, only for participants who wish to hold an RSAT VM on your own laptop).

Session 1: Concepts, methods and website utilization (9:00-10:30)

  1. Concepts (30' max)
  2. Motif discovery
  3. Motif enrichment

Using RSAT on the command line

  1. Opening a terminal on the IFB cloud (Institut Français de Bioinformatique).
  2. Installing an RSAT virtual machine (VM) on your computer
  3. First steps in Unix shell
  4. Motif discovery and enrichment on the command-line
  5. Random controls
Last update 15 Jan 2012 - by