Perl Class

[Sofia Robb]

Here is the task to solve for next week.

Read in a file with DNA sequences, translate to protein, and determine the number of N-linked glycosylation sites (pattern = N-X-S/T where X is not P), and the charge of the entire protein and/or specific regions of the protein.

Everyone should attempt to find a solution.  We will go over the solutions in class next week.

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Sofia Robb, Ph.D
Wessler and Stajich Laboratories
University of California Riverside

[Evelien Bunnik]

Hi all,

If you would like to have a nice dataset to work on, you could download accessions EU743973 - EU744175 from GenBank. These sequences encode the same protein (HIV envelop glycoprotein), but with different numbers of glycosylation sites.

Have fun!

Evelien

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From: ucr-perl-bi...@googlegroups.com [ucr-perl-bi...@googlegroups.com] on behalf of Sofia Robb [sofi...@gmail.com]
Sent: Thursday, December 01, 2011 17:21
To: ucr-perl-bi...@googlegroups.com
Subject: Perl Class

[Sofia Robb]

Thanks :)