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Bioinformatics. 2005 May 1;21(9):1917-26. Epub 2005 Jan 12.

Design of a DNA chip for detection of unknown genetically modified organisms (GMOs).

Author information

1
Department of Informatics, University of Oslo, Blindern, Norway.

Abstract

MOTIVATION:

Unknown genetically modified organisms (GMOs) have not undergone a risk evaluation, and hence might pose a danger to health and environment. There are, today, no methods for detecting unknown GMOs. In this paper we propose a novel method intended as a first step in an approach for detecting unknown genetically modified (GM) material in a single plant.

RESULTS:

A model is designed where biological and combinatorial reduction rules are applied to a set of DNA chip probes containing all possible sequences of uniform length n, creating probes capable of detecting unknown GMOs. The model is theoretically tested for Arabidopsis thaliana Columbia, and the probabilities for detecting inserts and receiving false positives are assessed for various parameters for this organism. From a theoretical standpoint, the model looks very promising but should be tested further in the laboratory.

AVAILABILITY:

The model and algorithms will be available upon request to the corresponding author.

PMID:
15647302
DOI:
10.1093/bioinformatics/bti248
[Indexed for MEDLINE]

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