FSTVAL: a new web tool to validate bulk flanking sequence tags.

ABSTRACT:

Background

Information about a transgene locus is one of the major concerns in transgenic research because expression of the transgene or a gene interrupted by the integration event could be affected. Thus, the flanking sequences obtained from transgenic plants need to be analyzed in terms of genomic context, such as genic and intergenic regions. This process may consist of several steps: 1) elimination of a vector sequence from the flanking sequence, 2) finding the locations in the target genome, and 3) statistics of the integration sites. These steps could be automated for flanking sequences from several dozens of transgenic plants generated in an ordinary targeted gene expression strategy. It would be indispensable in a genome-wide mutagenesis screen using T-DNA or transposons b

SUBMITTER: Kim JS 

PROVIDER: S-EPMC3439307 | biostudies-literature | 2012 Jun

REPOSITORIES: biostudies-literature