Fwd: Browsing Genes and Genomes with Ensembl by Dr. Bert Overduin

[Jaysen Knezovich]

Hi all,

 

For those of you who may be interested in Bioinformatics:

---------- Forwarded message ----------
From: Shaun Aron <shaun...@gmail.com>
Date: Fri, Sep 18, 2009 at 1:49 PM
Subject: Browsing Genes and Genomes with Ensembl by Dr. Bert Overduin
To: Jaysen Knezovich <jaysen.k...@gmail.com>

After the success of the Ensembl Genome Browser courses held in previous years
we have once again decided to bring Dr. Bert Overduin from the EBI out to South
Africa to present a one and a half day Ensembl Course.

The course is sponsored by the National Bioinformatics Network and will be hosted at the University of the Witwatersrand.

The Ensembl project (http://www.ensembl.org) provides a comprehensive and integrated
source of annotation of mainly vertebrate genome sequences. This one-and-a-half-day
workshop offers participants the possibility of gaining lots of hands-on experience in the
use of the Ensembl genome browser but also provides them with the necessary background
information. The workshop is primarily targeted at wetlab researchers and will cover the new version of
Ensembl which was released at the end of 2008.


The workshop consists of the following modules. Most modules consist
of a presentation, followed by the opportunity to do exercises.

• Introduction to Ensembl: origin, goals and organization of the Ensembl project
• Worked example: guided tour of the most important pages of the Ensembl website
• Data mining with BioMart: retrieving complex / large datasets using the data mining tool BioMart
• The Ensembl genebuild: how are Ensembl gene and transcripts predictions made?
• Comparative genomics: orthologues and paralogues, protein families, whole genome alignments and syntenic regions
• Variation: SNPs
• Advanced access: other ways of accessing Ensembl data (ftp, MySQL, Perl API)
• Custom annotation: displaying your own data in Ensembl

Participants are encouraged to bring problems/questions about their
research to try to tackle these during the workshop using Ensembl.

The only prerequisite for this workshop is general knowledge of molecular
biology / genomics and a familiarity with web browsers.

Note: Ensembl focuses on vertebrates and contains few genomes of lower
species (for available species, please have a look at http://www.ensembl.org).
Genomes of non-vertebrate species can be found in Ensembl Genomes
(http://www.ensemblgenomes.org).

The course will be held on the afternoon of the 22nd and the full day of the
23rd of October 2009 on the Wits Main Campus.

Since we can only accommodate a limited number of people we urge you to
book well in advance by contacting Shaun Aron
(Shaun...@wits.ac.za) to confirm your place.

   
   Further information for the course can be obtained from the following URL
   http://www.bioinf.wits.ac.za/ensembl.pdf

***************************************************************************************************

Name:

Institution:

Email:

Phone number:


***************************************************************************************************

  Kind Regards,

--
Shaun Aron
Bioinformatics Node
University of the Witwatersrand
011 717 6174
083 478 2890

--
Regards,
Jaysen Knezovich.


PhD Student
Division of Human Genetics
National Health Laboratory Service (NHLS)
University of the Witwatersrand
Johannesburg
South Africa

Tel: +2711 489 9225
Cell: +2784 900 1515