UPIC: Perl scripts to determine the number of SSR markers to run.

ABSTRACT:

Unlabelled

We introduce here the concept of Unique Pattern Informative Combinations (UPIC), a decision tool for the cost-effective design of DNA fingerprinting/genotyping experiments using simple-sequence/tandem repeat (SSR/STR) markers. After the first screening of SSR-markers tested on a subset of DNA samples, the user can apply UPIC to find marker combinations that maximize the genetic information obtained by a minimum or desirable number of markers. This allows a cost-effective planning of future experiments. We have developed Perl scripts to calculate all possible subset combinations of SSR markers, and determine based on unique patterns or alleles, which combinations can discriminate among all DNA samples included in a test. This makes UPIC an essential tool for optimizing re

SUBMITTER: Arias RS 

PROVIDER: S-EPMC2720665 | biostudies-literature | 2009 Apr

REPOSITORIES: biostudies-literature