OHSU

OHSU Gene Microarray Shared Resource

The OHSU Gene Microarray Shared Resource (GMSR) functions as a full-service genomics facility serving research scientists and clinicians with DNA microarray services for RNA expression profiling and DNA variation analysis on two microarray platforms, Affymetrix and Illumina.

SERVICES WE OFFER

  • Expression Profiling: mRNA and microRNA expression profiling, including options for whole transcript analysis and alternative transcript/exon analysis

  • DNA Variation Analysis: Whole genome and targeted SNP genotyping, copy number, loss of heterozygosity (LOH), and uniparental disomy (UPD) analysis

  • Epigenetic Analysis: DNA methylation and DNA-protein interactions (ChIP-on-Chip)

  • RNA Isolation: Support available for RNA isolation in connection with microarray or sequencing projects

  • RNA/DNA Assessment: Quantification and  size or quality assessment

For all other service inquiries, please contact the GMSR Director.

Unsure which platform and array to use? What assay type is used with a specific array? Questions about minimum RNA quantities required by assay? Use our pull down menu for expression profiling by species to see what arrays and assays are commonly used in the GMSR! Don't see array or species you want? Contact the GMSR potteram@ohsu.edu.

Apply for a Project

Click on a link below to access a downloadable project application.

Expression Profiling

DNA Variation Analysis

RNA Assessment (as a stand-alone service, without immediate plans for array hybridization)

DNA Assessment (as a stand-alone service, without immediate plans for array hybridization)

If you would like to request pre-project consultation or a service that is not represented by one of the forms listed above, please contact Dr. Chris Harrington, GMSR Director.

Major Equipment

  • Complete Affymetrix GeneChip and Illumina BeadArray systems for array hybridization, processing, and scanning
  • NanoDrop 1000 and 8000 spectrophotometers
  • Molecular Devices M2 spec/fluorimeter
  • Agilent 2100 Bioanalyzer
  • Caliper LabChip GX system
  • Covaris S2 Sonicator
  • QiaCube Sample Prep Robot
  • Suite of custom and commercial software for data QA/QC and analysis
  • Stable and redundant array data management systems
  • Databases dedicated to project/sample annotation and processing information

Affymetrix Releases New Cost Cutting Human Array!

Affymetrix has released a new 3' expression array! The Human PrimeView Array assay generates data comparable to the GeneChip Human Genome U133 plus 2.0 array at 1/2 the cost. 

 

“I recently ran an expression profiling study using the new Affymetrix Human PrimeView array.  Many genes shown by quantitative PCR beforehand to be induced were well-validated by the array and numerous previously unknown target genes were convincingly identified as being regulated. Given its coverage, performance, and cost I consider the  PrimeView array to be a good option for investigators interested in microarray-based expression profiling."

             Victor DeFilippis PhD, Vaccine and Gene Therapy Institute

PrimeView Data Sheet

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