VecScreen_plus_taxonomy: imposing a tax(onomy) increase on vector contamination screening.

ABSTRACT:

Motivation

Nucleic acid sequences in public databases should not contain vector contamination, but many sequences in GenBank do (or did) contain vectors. The National Center for Biotechnology Information uses the program VecScreen to screen submitted sequences for contamination. Additional tools are needed to distinguish true-positive (contamination) from false-positive (not contamination) VecScreen matches.

Results

A principal reason for false-positive VecScreen matches is that the sequence and the matching vector subsequence originate from closely related or identical organisms (for example, both originate in Escherichia coli). We collected information on the taxonomy of sources of vector segments in the UniVec database used by VecScreen. We used that information in two ov

SUBMITTER: Schaffer AA 

PROVIDER: S-EPMC6030928 | biostudies-literature | 2018 Mar

REPOSITORIES: biostudies-literature