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J Biomol Tech. 2010 September; 21(3 Suppl): S77–S78.
PMCID: PMC2918139

Enabling Technologies at the Expression Analysis and DNA Technologies Core Facilities at the UC Davis Genome Center

V.K. Rashbrook, H.N. Witt, and O. Nguyen
University of California-Davis Genome Center, Davis, CA, United States

Abstract

CF-34

The UC Davis Genome Center (GC) opened several years ago in a state-of-the-art facility and combines bench science with computational approaches to investigate questions in genomics. An important part of the GC is its five technology service cores providing access to enabling technologies to researchers within and outside the UC Davis campus. The DNA Technologies and Expression Analysis Cores are linked entities providing numerous services related to genotyping, genome structure, and sequencing. We operate three Illumina Genome Analyzer high throughput sequencers and two paired end modules. These instruments have been involved in numerous projects, including ChIP-seq, mRNA-seq, de novo genome assembly, and resequencing for SNP discovery. The Bioinformatics Core, another service entity associated with the GC, has been invaluable in rapidly allowing this instrumentation to provide full research value to the UC Davis campus. The DNA Technologies Core also utilizes all the available Illumina platforms for SNP genotyping, including the Golden Gate assay on both the iScan and BeadXpress, and the Infinium assay with associated Tecan liquid handling capability. The Expression Analysis Core provides array services and analysis on a subset of the available commercial platforms, focusing our efforts on Illumina expression arrays, as well as on NimbleGen and Agilent custom arrays. Because of local scientific expertise provided in the GC there is an emphasis on services related to chromatin immunoprecipitation (ChIP) techniques, a methodology generally unavailable in most technology service cores. We offer hands-on workshops in the basic manipulations required for ChIP as well as carrying out ChIP as a service with user-provided cells and antibodies. More information is available at http://genomecenter.ucdavis.edu/corefacilities.html.


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