Galaxy : mRNA Analysis Otago The NZ installation of Galaxy is a tool for the analysis and visualisation of sequence data. Registration is required - please email us to request an account. A screenshot is available here.

The Galaxy tool provides easy access to UCSC and other data sources. Queries of these sources may be coherently combined. The results may then be analysed right there using popular tools such as Emboss.

We provide tools to securely manage, analyse and visualise microarray data within New Zealand. Our service allows easy access to bioinformatic tools and the means for you to collaborate with other researchers. See the proposal abstract for more information.

caArray caArray is available as a New Zealand based data management system for microarray data. This is an installation of software originally developed at the National Cancer Institute as part of the caBig project.

• Securely store your array data in New Zealand.
• Collaborate with other researchers and bioinformaticians.
• Ensure important experimental data are maintained.
• Process data from a provider such as the Otago Genomics Facility.

GenePattern The NZ installation of GenePattern, provides local access for analysing and visualising expression data. GenePattern is a widely implemented, used and cited platform from the Broad Institute (MIT) with over 4000 registered users worldwide.

It combines a powerful scientific workflow platform with more than 90 computational and visualization tools for the analysis of genomic data.

The focus of this platform is on

• Gene Expression Analysis: Standard and novel clustering, prediction, and marker selection methodologies.
• SNP Analysis: Analyze SNP microarrays using normalization, copy number estimation, smoothing, LOH determination, and visualization.

It also has powerful features for Proteomics and Data Format Conversion

See the GenePattern project homepage for more details.

Reference
Reich M, Liefeld T, Gould J, Lerner J, Tamayo P, Mesirov JP (2006) GenePattern 2.0 Nature Genetics 38 no. 5 (2006): pp500-501 doi:10.1038/ng0506-500.

Genomics Community A wiki site is available to facilitate the interchange of ideas within the Genomics Community.