DNA Microarray Analysis
We offer gene expression analysis using the Affymetrix GeneChip® microarray system.
GeneChip expression arrays are available for over 30 different eukaryotic and prokaryotic species, and new arrays are being added on a regular basis. Please refer to the Affymetrix.com website and their array index page for details.
The Human Genome U133A 2.0 and Mouse Genome 430A 2.0 chips are kept in stock in the Microarray Core and are available for $500.00 per chip. This price assumes starting with your total RNA (5 µg minimum at ~1µg/µl) and includes labeling, hybridization, washing, staining and scanning. These chips contain most of the annotated human and mouse genes. Other chips are available on request, but may require a minimum order due to package sizes of the chips. We will be happy to give you advice on what chips are available and which ones may be most useful for your research needs.
There will be a reduced charge of $150.00 per sample for labeling reactions that fail to give enough labeled RNA for the hybridization procedure. Please check your RNA with a gel for tight rRNA bands, and with 260/280 readings (≥1.9 in Tris pH8 or ≥1.6 in water). We have available for use in the NARF a PerkinElmer UV/VIS Spectrophotometer and a BioRad Experion automated electrophoresis system for RNA analysis. Please contact the NARF for details. If you would like to do your own labeling reactions we can help you with reagent ordering.
We have computers available in the NARF for microarray analysis. NARF personnel can introduce you to routine microarray analysis. Analysis software for your use in the Microarray Core includes Affymetrix GCOS software, Affymetrix Data Mining Tool and ArrayAssist software from Stratagene. For more detailed help with statistical setup and analysis of your microarray experiments we can suggest collaborators from the VCU Department of Biostatistics.
Also available in the Microarray Core is a Biorobotics MicroGrid TAS spotter for custom spotting of DNA microarrays. We also have a PerkinElmer (Packard) ScanArray 5000XL scanner. This scanner handles arrays printed on a standard microscope slide format and has five individual lasers, allowing the scanning of most available fluorophores.