## Description

This track displays the probes from the Agilent Catalog Oligonucleotide Microarrays.

Agilent's oligonucleotide CGH (Comparative Genomic Hybridization) platform enables the study of genome-wide DNA copy number changes at a high resolution. The CGH probes on Agilent aCGH microarrays are 60-mer oligonucleotides synthesized in situ using Agilent's inkjet SurePrint technology. The probes represented on the Agilent CGH microarrays have been selected using algorithms developed specifically for the CGH application, assuring optimal performance of these probes in detecting DNA copy number changes.

The Agilent SurePrint G3 CGH+SNP microarrays are designed for high quality human DNA copy-number profiling combined with the simultaneous detection of copy-neutral aberrations, such as lack or loss of heterozygosity (LOH) and uniparental disomy (UPD). Identification of LOH/UPD is enabled by the presence of a set of SNP probes on the CGH+SNP microarrays resulting in ~5-10 Mb resolution for copy neutral LOH/UPD detection across the entire genome.

The Agilent catalog CGH and CGH+SNP microarrays are printed on 1 in. x 3 in. glass slides and are available in several formats. The human catalog SurePrint G3 microarrays formats are the 1x1M (gene-biased or evenly tiled), 2x400K (CGH-only or CGH+SNP), 4x180K (CGH-only or CGH+SNP), and 8x60K. The legacy human catalog SurePrint HD microarrays are the 1x244K, 2x105K, and 4x44K.

Non-SNP subtracks are colored in alternating shades of green and orange to highlight track boundaries. SNP subtracks are colored blue with SNP probes colored dark blue and CGH probes colored light blue. The track consists of the following subtracks:

Description | AMADID | Samples per Slide | Biological Features | Median Probe Spacing | Gene-biased | SNPs
--- | --- | --- | --- | --- | --- | ---
SurePrint G3 Human CGH Microarray 1x1M | 021529 | 1 | 969,033 | 2.1 kb | Yes | 0
SurePrint G3 Human High-Resolution Microarray 1x1M | 023642 | 1 | 989,214 | 2.6 kb | No (evenly tiled) | 0
SurePrint G3 Human CGH+SNP Microarray 2x400K | 028081 | 2 | 411,434 | 7 kb | Yes | 65,000
SurePrint G3 Human CGH Microarray 2x400K | 021850 | 2 | 415,914 | 5.3 kb | Yes | 0
SurePrint G3 Human Cancer CGH+SNP Microarray 4x180K | 030587 | 4 | 172,595 | 25 kb | Yes (cancer genes) | 65,000
SurePrint G3 Human CGH+SNP Microarray 4x180K | 029830 | 4 | 172,595 | 25 kb | No (ISCA regions) | 65,000
SurePrint G3 Human CGH Microarray 4x180K | 022060 | 4 | 174,675 | 13 kb | Yes | 0
SurePrint G3 Human CGH Microarray 8x60K | 021924 | 8 | 59,175 | 41 kb | Yes | 0
SurePrint HD Human CGH Microarray 1x244K | 014693 | 1 | 238,331 | 8.9 kb | Yes | 0
SurePrint HD Human CGH Microarray 2x105K | 014698 | 2 | 100,034 | 22 kb | Yes | 0
SurePrint HD Human CGH Microarray 4x44K | 014950 | 4 | 43,143 | 43 kb | Yes | 0

## References

More information on Agilent Oligonucleotide Microarrays can be found on Agilent's website.

Barrett MT, Scheffer A, Ben-Dor A, Sampas N, Lipson D, Kincaid R, Tsang P, Curry B, Baird K, Meltzer PS et al. Comparative genomic hybridization using oligonucleotide microarrays and total genomic DNA. PNAS. 2004 Dec 21;101(51):17765-70.

## Credits

Thanks to Shane Giles, Peter Webb, and Anniek De Witte from Agilent Technologies for providing these data.