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aCGH & AGH Analysis
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aCGH & AGH analysis

Cambridge Bioscience offers access to two services for human samples based on aCGH and AGH array platforms.

Why perform array hybridisation?
Both G-banding and arrays analysis are complementary and should be used in combination to check that a cultured cell line remains chromosomally normal. Karyotype analysis is suitable for the analysis and detection of large structural and numerical chromosomal abnormalities over 30 Mb. Karyotype analysis can also detect balanced translocations which frequently occur in cultured cells, however, karyotype analysis provides low resolution. A much higher resolution of DNA dosage imbalances and LOH can be characterised using array comparative genome hybridisation (aCGH) and array genome hybridisation (AGH). aCGH and AGH can be performed for the assessment of acquired DNA copy number variation (CNV) with a genome-wide resolution of less than 200 kb and as little as 2 kb.

aCGH analysis
Performed on the Agilent 8x60K platform, this system utilises two differentially labelled DNA samples cohybridised to an array with ~55,000 oligonucleotide probes. The relative abundance of DNA binding to each probe provides a direct measure of relative copy number of the two samples.

Service options:
1. A single sample is hybridised against a control DNA sample provided by Cell Guidance Systems
2. Both test and control samples are provided by the customer and are cohybridised to assess acquired CNV. It is recommended that both the control and test DNA samples are isolated from the cells at the same time

AGH analysis
AGH is performed using Affymetrix CytoScan 750K platform, where the hybridisation data from a single test DNA is compared with a series of controls hybridisations in silico. The array has 750,486 distinct features. The AGH assay is particularly useful for assessing for acquired loss of heterozygosity (LOH).

What types of abnormalities are reported?
• Acquired CNVs and LOH present in at least ~15-20 percent of cells
• For the CytoScan platform (AGH), an assessment of normal variation is made with reference to ~5,000 normal control samples and a database of ~10,000 clinical samples. Benign constitutional (heritable) CNVs will not be reported
• Balanced rearrangements and low level (10–20 percent) of mosaicism will not be detected using either CGH or AGH arrays - this level of mosaicism is statistically similar to the level which can be detected by an analysis of 20 cells

Karyotype analysis can detect certain acquired abnormalities, e.g. gain in the small arm of a chromosome, but the precise nature of certain unbalanced chromosomal abnormalities is difficult to establish only by using G-banding analysis. Marker chromosomes and additional material on a chromosome from unknown origin will require array analysis.

Sample types accepted for CGH / AGH services
Human samples - detailed instructions on sample preparationwill be provided upon ordering.

Reports will be provided within 15–17 business days.

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