Services

Genomics Services

The High Throughput Genomics Shared Resource provides investigators at the University of Utah with access to Illumina sequencing (HiSeq and MiSeq), the Fluidigm C1 Single-Cell Auto Prep System and to the Affymetrix and Agilent Technologies microarrays platforms. The Resource is operated as a full-service facility that provides expertise in experimental handling of all aspects of these technologies.

Bioinformatics Services

The Bioinformatics Shared Resource can assist you with the design and analysis of next-generation sequencing and microarray experiments, including data visualization, data analysis, and access to software and computing resources. This facility’s staff can also assist with the preparation of figures, grant applications, upload or access to public databases, and design of custom genome captures or microarrays. Our services are available to any University of Utah researchers.

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.

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.

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.

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.

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.

Custom algorithm/ software design

As part of our analysis services, the core develops many software tools for custom analysis. These are released as part of several open source projects.

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.

Computing Resources

The Bioinformatics Core has access to 6 large Linux server class machines which we use for general analysis (3 8-processor machine with 32G RAM, and 2 4-processor machines with 16G RAM each). The Core purchased and makes use of a 13 node / 156 processor cluster at the Center for High Performance Computing for more compute-intensive sequence analysis.

The core also purchased a high-performance Macintosh kiosk workstation for genomic visualizations that is available for external use. Contact the core for details.

Contact Us

Genomics Director
Brian K. Dalley, PhD
brian.dalley@hci.utah.edu
801-585-7192

Bioinformatic Analysis Director
David Nix, PhD
david.nix@hci.utah.edu
801-587-4611

Governance

HCI Senior Director Oversight
Bradley Cairns, PhD

Faculty Advisory Committee Chair
Bradley Cairns, PhD

Faculty Advisory Committee Members
Richard Clark, PhD
Jason Gertz, PhD
Christopher Gregg, PhD
Philip Moos, PhD
Sean Tavtigian, PhD
Katherine Varley, PhD
Joseph Yost, PhD