Gene expression profiling in the rhesus macaque: Methodology, annotation and data interpretation

Nigel C. Noriega, Steven Kohama, Henryk Urbanski

    Research output: Contribution to journalArticle

    8 Citations (Scopus)

    Abstract

    Gene microarray analyses represent potentially effective means for high-throughput gene expression profiling in non-human primates. In the companion article, we emphasize effective experimental design based on the in vivo physiology of the rhesus macaque, whereas this article emphasizes considerations for gene annotation and data interpretation using gene microarray platforms from Affymetrix®. Initial annotation of the rhesus genome array was based on Affymetrix® human GeneChips®. However, annotation revisions improve the precision with which rhesus transcripts are identified. Annotation of the rhesus GeneChip® is under continuous revision with large percentages of probesets under multiple annotation systems having undergone multiple reassignments between March 2007 and November 2008. It is also important to consider that quantitation and comparison of gene expression levels across multiple chips requires appropriate normalization. External corroboration of microarray results using PCR-based methodology also requires validation of appropriate internal reference genes for normalization of expression values. Many tools are now freely available to aid investigators with microarray normalization and selection of internal reference genes to be used for independent corroboration of microarray results.

    Original languageEnglish (US)
    Pages (from-to)42-49
    Number of pages8
    JournalMethods
    Volume49
    Issue number1
    DOIs
    StatePublished - Sep 2009

    Fingerprint

    Gene Expression Profiling
    Macaca mulatta
    Gene expression
    Microarrays
    Genes
    Molecular Sequence Annotation
    Gene Expression
    Microarray Analysis
    Primates
    Research Design
    Research Personnel
    Genome
    Polymerase Chain Reaction
    Physiology
    Design of experiments
    Data Curation
    Throughput

    Keywords

    • GeneChip Rhesus Macaque Genome Array
    • Macaca mulatta
    • Microarray

    ASJC Scopus subject areas

    • Molecular Biology
    • Biochemistry, Genetics and Molecular Biology(all)

    Cite this

    Gene expression profiling in the rhesus macaque : Methodology, annotation and data interpretation. / Noriega, Nigel C.; Kohama, Steven; Urbanski, Henryk.

    In: Methods, Vol. 49, No. 1, 09.2009, p. 42-49.

    Research output: Contribution to journalArticle

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