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XHM: A system for detection of potential cross hybridizations in DNA microarrays

Flikka, Kristian; Yadetie, Fekadu; Lægreid, Astrid; Jonassen, Inge
Peer reviewed, Journal article
Peer reviewed
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URI
https://hdl.handle.net/1956/7174
Date
2004-08-27
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  • Department of Informatics [541]
Original version
https://doi.org/10.1186/1471-2105-5-117
Abstract
Background: Microarrays have emerged as the preferred platform for high throughput gene expression analysis. Cross-hybridization among genes with high sequence similarities can be a source of error reducing the reliability of DNA microarray results. Results: We have developed a tool called XHM (cross hybridization on microarrays) for assessment of the reliability of hybridization signals by detecting potential cross-hybridizations on DNA microarrays. This is done by comparing the sequences of the probes against an extensive database representing the transcriptome of the organism in question. XHM is available online at http://www.bioinfo.no/tools/xhm/. Conclusions: Using XHM with its user-adjustable parameters will enable scientists to check their lists of differentially expressed genes from microarray experiments for potential crosshybridizations. This provides information that may be useful in the validation of the microarray results.
Publisher
BioMed Central
Journal
BMC Bioinformatics
Copyright
Kristian Flikka et al.; licensee BioMed Central Ltd.
Copyright 2004 Flikka et al; licensee BioMed Central Ltd.

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