Services

From BioInfo

Contents 1 Microarray and Illumina Sequencing Services 2 Bioinformatics Services 2.1 Experiment design 2.2 Data analysis 2.3 Grant applications and publications 2.4 Array annotation 2.5 Custom array design 2.6 Public database submissions 2.7 Computing Resources

[edit] Microarray and Illumina Sequencing Services

• Sample Quality
• Agilent Microarray Platform
• Affymetrix Microarray Platform
• Illumina Genome Analyzer Sequencing

[edit] Bioinformatics Services

[edit] Experiment design

• The Bioinformatics Core is available to help you design microarray and sequencing experiments, including appropriate number of replicates, choice of arrays, and choice of controls.

[edit] Data analysis

• We can analyze your data, assist you with analysis, or teach you how to analyze your data yourself using academic or commercial analysis software. We can help you choose appropriate analysis methods and tools, and can provide access to popular analysis programs.

[edit] Grant applications and publications

• We are happy to review or contribute to the microarray or sequencing portion of grant applications and manuscripts, including the analysis of preliminary data and preparation of figures.

[edit] Array annotation

• In some cases the Core can provide additional annotation (e.g. pathways, Gene Ontology, or homolgy to other organisms) for microarray data sets.

[edit] Custom array design

• The Agilent oligonucleotide microarray platform supports custom microarray designs. The Bioinformatics Core can assist with probe selection and annotation for custom arrays.

[edit] Public database submissions

• Publication in top-tier journals frequently requires submission of microarray or sequencing data to a public database such as GEO or ArrayExpress. We can assist you with the submission of array descriptions, experiment descriptions, and data.

• Extra paper supplemental information that cannot be hosted on the publisher's web site can be hosted indefinitely at http://bioserver.hci.utah.edu/SupplementalPaperInfo/ . Contact the core for details.

[edit] Computing Resources

• The Bioinformatics Core has access to three large Linux server class machines which we use for general analysis (1 8-processor machine with 32G RAM, and 2 4-processor machines with 16G RAM each). The Core makes use of the 156 node / 624 processor SandDuneArch cluster at the Center for High Performance Computing for more compute-intensive sequence alignments. The core also makes available a high-performance Macintosh kiosk workstation. Contact the core for details.