OHSU

GENE PROFILING SHARED RESOURCE

The OHSU Gene Profiling Shared Resource (GPSR), formerly the Gene Microarray Shared Resource,
functions as a full-service genomics facility providing research scientists and clinicians with services for RNA expression profiling and DNA variation analysis. Technologies available through the core include two microarray platforms, Affymetrix and Illumina, a high throughput qPCR system, and a short read next generation DNA sequencing instrument.

Support and consultation for RNA and DNA isolation and RNA/DNA quality assessment also available

ABOUT

The GPSR is located on OHSU Marquam Hill Campus in Richard Jones Hall room 5390
 CORE INFORMATION

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 and copy number analysis with microarrays and PCR assays

  • RNA and DNA Isolation: Support available for RNA/DNA isolation in connection with microarray, sequencing or Q-PCR projects; automated protocols for QIAGEN spin-column kits, including PAXGene Blood RNA kits

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

INSTRUMENT ACCESS WE OFFER

  • QuantStudio qPCR System
  • Caliper LabChip GX System

For all other service and instrument access inquiries, please contact the GPSR Director.

Unsure which platform and array to use? Questions about minimum RNA quantities required? Use our pull down menu for expression profiling by species to see what arrays and assays are commonly used in the GPSR! Don't see array or species you want? Contact the GPSR 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, GPSR Director.

INSTRUMENT USE
Click on link below for instrument use request form.  If you require instrument training or more information, contact Chris Harrington at harringc@ohsu.edu

Major Equipment

  • Complete Affymetrix GeneChip and Illumina BeadArray systems for array hybridization, processing, and scanning
  • Ion Torrent PGM Sequencer
  • Life Technologies QuantStudio qPCR System
  • NanoDrop 1000 and 8000 spectrophotometers
  • Molecular Devices M2 spec/fluorimeter
  • Agilent 2100 Bioanalyzer
  • Caliper LabChip GX system
  • QiaCube Sample Prep Robots
  • Suite of custom and commercial software for data QA/QC and analysis

New Assays and Technologies

Genome-wide Profiling of Human Transcript Isoforms

New  comprehensive transcriptome array from Affymetrix– GeneChip Human Transcriptome Array 2.0.  Array design includes exon andsplice junction probes and provides data about all transcript isoforms.

Affymetrix GeneChip Human Transcriptome Array 2.0

To facilitate analysis of array data, Affymetrix has just released easy-to-use Transcriptome Analysis Console (TAC) software for differential expression analysis and data visualization.  Contact Affymetrix or Amiee Potter (potteram@ohsu.edu) for more information.

Affymetrix Transcriptome Analysis Console (TAC) Software
 

Small Sample Profiling

Improved protocols for small sample profiling – total RNA inputs as low as 500 pg


QuantStudio qPCR services

Taqman® Array Cards, 384- and 96-well plates. Contact Dr. Christina Harrington at harringc@ohsu.edu for details

Special pricing on reagents from 
Life Technologies through June 2014
QuantStudio Promotion Details


RNA Isolation from FFPE Specimens

Announcements

NanoString Genomics Semina

Presenting applications of the NanoString Platform!

Friday - April 25, 2014

10:00 - 11:00 am

Mac Hall, Room 2201


NanoString Seminar

AFFYMETRIX COST CUTTING HUMAN ARRAY

The Human PrimeView Array assay generates data comparable to the GeneChip Human Genome U133 plus 2.0 array at 1/3 the cost. 

PrimeView Data Sheet

FREQUENTLY VIEWED