Location
Room B-303: Affymetrix GeneChip system, Liquid handling and Agilent 2100 bioanalyzer.
Room A-157: Custom array system, TaqMan 7900HT.
Facilities and Services
Affymetrix GeneChip arrays
This platform can analyze all GeneChip probe arrays for gene expression analysis and DNA analysis. A broad range of whole genome arrays are available in Affymetrix product lines, including human genome array, human SNPs, mouse genome, rat genome, rat toxicology, rat neurobiology, drosophila genome, Arabidopsis genome, C. elegant genome, Yeast genome, E. coli and P. aeruginosa genome, and others. We can help you design your experiment and provide detailed protocols for both RNA and DNA sample preparations.
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Custom array service
Custom arrays provide flexibility in the choice of arrayed elements, particularly for the preparation of smaller, customized arrays for specific investigations. The arrayed material can be complementary DNA (cDNA), oligonucleotide probes, and proteins, and the target area may be glass slides, porous nylon membrane, or other microplates. The custom array service supplies the Robotic 96-well/384-well transferring, spotting technology, hybridization and washing system, and an array reader.
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Agilent 2100 Bioanalyzer
This piece of equipment replaces conventional gel electrophoresis and improves analysis of DNA, RNA, proteins and cells through automation for better accuracy and reproducibility, rapid visualization of sample quality and quantity, and high sensitivity with only a small amount of sample. Both RNA Nano and Pico chip kits are available in the core facility.
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Beckman Biomek FX liquid handling robot
The FX system is a customizable, fully-automated, high throughput liquid handling robot with the ability to use 96 or 384 plates and to transfer from plate to plate with four formatting options 96-96, 96-384, 384-96, 384-384. The FX has span8 syringes for liquid handling in tubes, vials or plates for experiment setup and is ideal for large projects. The FX can be used for library manipulation, 96 well PCR setup, as well as library duplication.
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Microarray data analysis
Our staff has a great deal of expertise in microarray data analysis. In the past few years, we have evaluated more than 12 software packages including GeneSpring, Spotfire, SAM, dChip, BRB, R-based tools from Bioconductor and some statistical packages, such as R and S-plus, etc. and helped each array user with data manipulation, including data visualization, normalization, statistical analysis and error modeling, pattern recognition, pathway and gene network, and data interpretation meaningful to biologists. We have also started to evaluate the tools and software for SNP data analysis since Affymetrix brought the 10K SNP chip to the research community. The core staff is available for consulting.
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ABI 7900HT Sequence Detection System
In addition to standard PCR thermal cyclers, MCF also houses a real-time PCR instrument. The 7900HT System is the only real-time quantitative PCR system that combines 96- and 384-well plate compatibility and the TaqMan Low Density Array with fully automated robotic loading and also offers optional Fast real-time PCR capability. Using two automation software tools, Plate Utility and Automation Controller, most of the gene expression and SNP genotyping workflow is fully automated for high-throughput applications. Key applications include gene expression quantitation and the detection of single nucleotide polymorphisms (SNPs) using the fluorogenic 5' nuclease assay.
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 Downloads & External Links |
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Contact
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Jenny Xiang, MD Director, Assistant Professor (212) 746-4258 jzx2002@med.cornell.edu Hesed S. Kim Research Technician II (212) 746-6238/5343 hsk2001@med.cornell.edu Tomy Thomas Senior Accounting Assistant (212) 746-6503 tthomas@med.cornell.edu |
Dirk Schnappinger, PhD Consultant for spotting array Assistant Professor dis2003@med.cornell.edu Hojung Cho Research Technician (212) 746-6238/5343 hoc2002@med.cornell.edu |
