BIOINFORMATICS

GeneSpring GX 9.0

26 February 2008

Agilent Technologies

Agilent Technologies has introduced GeneSpring GX 9.0, which is the latest edition of its visualisation and analysis system for gene expression data that includes new guided workflow features for major microarray platforms, helping new users quickly produce results.

GeneSpring GX 9.0 offers gene expression guided workflows for Agilent SurePrint microarrays, Affymetrix GeneChips and Illumina Beadchips, with additional applications planned.

GeneSpring GX 9.0 also provides an advanced mode, offering full control over the complete set of features for all array types and technologies.

GeneSpring GX 9.0 enables users to ask detailed questions about complex data sets, including t-tests, two-way and three-way ANOVA tests, and one-way post-hoc tests for reliably identifying differentially expressed genes. The system's class-prediction analysis tools help users identify genes capable of discriminating between one or more experimental parameters or sample phenotypes.

Scientists can employ a broad assortment of pattern-recognition techniques to uncover the most abundant patterns in gene expression data, and to recognize how those patterns are related. Gene trees, experiment trees, self-organising maps and a variety of k-means clustering metrics are provided in GeneSpring GX 9.0.

After statistical analysis, GeneSpring GX 9.0 can be used to highlight enriched pathways or gene ontology categories for insight into how the data relates to the biology. The system supports the BioPAX pathways/network exchange format (OWL) and lets users import hundreds of networks and pathways from a large number of sources such as KEGG (requires license), The Cancer Cell Map and BioCyc.

This is the first GeneSpring release on the Avadis platform, developed by Strand Life Sciences under an agreement announced in August 2007.

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