CytoSure™ ISCA UPD Array

The CytoSure ISCA UPD delivers:

• Reliable detection of cytogenetic CNV and whole chromosome UPD on a single array
• Superior aberration detection sensitivity and specificity using long (60mer) oligos
• Confident detection of whole chromosome UPD using fully validated and evenly distributed SNP content
• Easy data generation and interpretation using established workflows and complementary CytoSure Interpret Software

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Innovative array design

The CytoSure ISCA UPD array combines the facility to detect copy number changes with the identification of whole chromosome uniparental disomy (UPD). The CytoSure ISCA 4 x 180k array content is combined with evenly distributed SNP-specific probes. Multiple rounds of probe selection and validation provided highly informative SNP content that allows confident detection of whole chromosome UPD using hybridisation conditions optimised for copy number detection (Figure 1).

Figure 1: The strategy used to select informative SNPs and probes capable of discriminating between SNP alleles.

View the SNP and probe selection strategy in greater detail (PDF)

The CytoSure ISCA UPD array allows confident detection of a number of UPD syndromes (Table 1).

Table 1: A list of UPD syndromes detected by the CytoSure ISCA 4 x 180k array.

Standardised method and workflow

The unique design of the CytoSure ISCA UPD array provides the following advantages, allowing quick integration into your existing procedures and workflow:

• Any reference DNA can be used
• Restriction digest is not required
• Identical hybridisation setup to non-UPD arrays but longer hybridisation required
• Identical washing procedure to non-UPD arrays

Effortless data analysis

Using CytoSure Interpret Software, data analysis is simple, allowing easy identification of regions with a loss of heterozygosity (LOH) (Figure 2). In addition to whole chromosome UPD, segmental UPD has also been detected using the CytoSure ISCA UPD array (Figure 3)

Figure 2: CytoSure Interpret Software clearly displays the percentage of homozygous and heterozygous SNPs for each chromosome. Red dots indicate homozygous alleles, black heterozygous. With 95% homozygous SNPs, chromosome 6 presents a clear example of whole chromosome UPD.*

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Figure 3: Detailed view of chromosome 2 using CytoSure Interpret Software. Although the total percentage of homozygous SNPs is 68%, long stretches of the chromosome exhibit a loss of heterozygosity (LOH).  These regions are strong indicators for segmental UPD.*

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The CytoSure ISCA UPD 4 x 180k array combines the established CytoSure ISCA 4 x 180k array for the detection of microamplifications and microdeletions with new probe content to detect whole chromosome UPD. This increased functionality enables researchers to identify a broader range of syndromes in a single array experiment. The array format, ease-of-use and effortless data interpretation combine to make this array an obvious choice for the next stage in cytogenetic research.

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Related products

CytoSure™ products are for research use only.

* Samples used in the CytoSure Interpret Software screenshots were kindly provided by Dr Deborah JG Mackay and Dr Rebecca Poole, Wessex Regional Genetics Laboratory, Salisbury District Hospital, Salisbury, SP2 8BJ.