Re-annotation of the maize oligonucleotide array

Authors

  • Felix Seifert - Developmental Biology and Biotechnology, Biocenter Klein Flottbek, University of Hamburg, 22609 Hamburg, Germany - Bioinformatics, Technical University of Applied Sciences Wildau, 15745 Wildau, Germany
  • Alexander Thiemann Developmental Biology and Biotechnology, Biocenter Klein Flottbek, University of Hamburg, 22609 Hamburg, Germany
  • Heike Pospisil Bioinformatics, Technical University of Applied Sciences Wildau, 15745 Wildau, Germany
  • Stefan Scholten Developmental Biology and Biotechnology, Biocenter Klein Flottbek, University of Hamburg, 22609 Hamburg, Germany

Keywords:

maize oligonucleotide array, microarray, annotation

Abstract

The microarray technology has become an established approach for large-scale gene expression analysis with mature protocols for sample, microarray, and data processing. The maize oligonucleotide array (maizearray) is one of the few microarray platforms designed for genome-wide gene expression analysis in Zea mays L. Many datasets addressing various genetic, physiological and developmental topics generated with this platform are available. The original 57,452 microarray probes were compiled based on expressed sequence tags (ESTs). Meanwhile the maize genome sequence became available providing the possibility for an improved annotation of the microarray probe set. In this study we determined the genome positions of all maize array probes to obtain current gene annotations and generated current Gene Ontology (GO) annotations. These new data allow tracing redundancy of the probe set and interfering cross-hybridizations, and doubled the number of genes with functional GO data. Our re-annotation will largely improve the functional analysis of available and future datasets generated on this microarray platform.

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Published

2012-09-06

Issue

Vol. 57 No. 1 (2012)

Section

Articles

License

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