Instrumentation

The Microarray Core is well equipped for detailed studies on gene expression as well as related services including RNA isolation and quality control; hybridizations to Affymetrix GeneChip and in house spotted cDNA arrays. Major instrumentation at our core facility include the following:

Agilent BioAnalyzer

A small amount of sample is loaded into the wells in a chip which is then loaded into the Bioanalyzer.
Electrodes applied to the chip cause the RNA to move through microchannels filled with a sieving polymer and fluorescent dye.
Fluorescence signal is plotted against run-time to generate an electropherogram or translated to gel-like images.
Quality metrics such as 28S/18S ratio and RIN (RNA integrity number) are generated also.

Nanodrop ND-1000

The Nanodrop ND-1000 is a "cuvette-less" spectrophotometer. One microliter of sample is placed on the pedestal and the Nanodrop stretches the liquid into a column of fixed length.
Fiberoptics is employed to pass filtered light through the stretched column. Absorbance at various wavelengths is measured and reported through an attached computer.

Affymetrix GeneChip Fluidics station 450

The fluidics stations automate the washing and staining aspects of the sample processing stream

Affymetrix GeneChip Scanner 3000 7G

An excitation laser is passed over the surface of themicroarray at a very high resolution.
Emmissions are scanned at multiple wavelengths from a single excitation wavelength.
Autoloader allows temperature controlled handling of up to 48 GeneChips per run.

Affymetrix Hybridization Oven 640

This high capacity oven is used to incubate the GeneChip cartridge arrays for overnight hybridizations.

Axon Genepix Scanner 4000B

This scanner is used to scan Nimblegen and other arrays spotted in a 1” x 3” format at 5 µm -100 µm resolution (16-bit dynamic range). The scanner has 532 nm and 635 nm excitation lasers with emission filters optimized for Cy3 and Cy5.

Agilent DNA Microarray Scanner G2565CA

This high resolution scanner allows us to scan microarrays at 2, 5 or 10 microns. This high throughput scanner can scan the new high density (>1M probes) from Agilent and Nimblegen. The scanner has 532 nm and 635 nm excitation lasers with emission filters optimized for Cy3 & Cy5 and Alexa 647, 555, and 660.

Agilent hybridization oven

This rotisserie oven holds the specialized clamps used for Agilent slide arrays.

Nimblegen 4-bay Hybridization station

This instrument allows hybridization to Nimblegen microarrays with active mixing using Nimblegen mixers. This unit can process 4 slides simultaneously.

Qiagen Tissue Lyser

This high throughput cell/tissue lysis unit allows us to isolate nucleic acids from up to 96 samples simultaneously

GMS Microarrayer

A robotic system used for creating custom spotted arrays.

GSI Lumonics 3-laser array scanner

A multipurpose 3-laser slide array scanner

Biomek 2000 workstation

The Biomek workstation is a liquid handling system for general purpose plates setup