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MICROARRAY HARDWARE AND SOFTWARE

 

Affymetrix GeneChip system

The GeneChip probe arrays offer high volume and performance by providing high quality probe sequences using factory-manufactured Affymetrix probe array technology. The profiling service allows users to operate Affymetrix GeneChip DNA array equipment, including the Affymetrix hybridization oven, Affymetrix fluidics station, Agilent GeneArray scanner and accessories such as a microcentrifuge and heat block.

 

Microarray Data Mining

Microarray data processing begins with first-tier computations including image acquisition, scaling, normalization, and visualization. Processing proceeds to second-tier computations involving statistical analysis, clustering, and pathway and gene identification. The Microarray station includes software only for the first-tier analysis because this is intrinsic to the core operating system as purchased. First-tier software includes the Affymetrix Microarray Suite 5.0 (MAS). GeneChip Data Ming Tool and GenePix Pro 3.0, and requires technical support with converting and transferring the original microarray data into PC-executable files, such as TIF, Excel, and text files. These services are designed to allow users to perform their downstream data analysis.

 

Equipment and Software

The workstation has the following array systems and equipment:

1. Affymetrix GeneChip System (www.affymetrix.com): contains Affymetrix Hybridization Oven 640, Affymetrix Fluidics Station 400, Agilent GeneArray Scanner, Affymetrix computer workstation, Affymetrix Microarray Suite Software 5.0, Affymetrix MicroDB Software, Affymetrix Data Mining Tool Software (DMT) and EASI Expression Analysis Sequence Information Database.

2. A Custom Array System, arrayer: MicroGrid II TAS, Genepix 4000 B Axon Scanner with GenePix Pro 3.0, Biomek FX liquid handling robot, ASP Hybridization System.

Affymetrix GeneChip Expression Analysis Technical Guide

To download a Technical Guide, please visit http://www.affymetrix.com/support/.

 

HOURS

The workstation is open Monday-Friday 9 AM-5 PM except on College-designated holidays, and after hours at the discretion of the staff. Scheduling is done by sign-up sheet in 3-day blocks of time. Cancellations must be made at least 1 day in advance.

 

CONTACT

 

For scientific and technical questions, contact:

 

Dr. Xian-Cheng Jiang
Department of Cell Biology
Phone: (718)-270-6701 (Office), (718)-270-6720 (lab)
Email: xjiang@downstate.edu

 

Weimin Liu
Department of Cell Biology
Room BSB 3-116
Phone: (718) 270-1242
Email: wliu@dowstate.edu

For scheduling and billing, contact:

 

Weimin Liu
Department of Cell Biology
Room BSB 3-116
Phone: (718) 270-1242
Email: wliu@dowstate.edu