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CytoScan HD Suite

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CytoScan HD Suite is the unrivaled standard in cytogenetics, enabling the highest genome-wide resolution to detect chromosomal aberrations.

Part # Description Unit Size
CytoScan® HD Array Kit and Reagent Kit Bundle
Arrays and reagents sufficient for 24 reactions   
CytoScan® HD Training Kit
Arrays and reagents sufficient for 24 reactions plus training materials   
CytoScan Amplification Kit
Amplification reagents sufficient for 96-100 samples   

CytoScan HD Suite includes CytoScan HD Array, CytoScan Reagent Kit, the easy-to-use Chromosome Analysis Suite (ChAS), and the proven GeneChip™ Instrument System.

CytoScan HD Suite is the unrivaled standard in cytogenetics research and delivers with:

Exceptional performance–coverage without compromise

CytoScan HD Suite provides the broadest coverage and highest performance for detecting chromosomal aberrations. CytoScan HD Suite has greater than 99% sensitivity and can reliably detect 25-50kb copy number changes across the genome at high specificity with single-nucleotide polymorphism (SNP) allelic corroboration. With more than 2.6 million copy number markers, CytoScan HD Suite covers all OMIM™ and RefSeq genes. Our proprietary manufacturing technology produces arrays that are highly reproducible between each batch with no risk of probe dropout inherent in bead manufacturing techniques. Surpassing the limitations of current database curations, the whole-genome array ensures that novel findings can be catalogued for future discoveries and annotations, which are often missed by targeted designs.

High-density SNPs with >99% genotype accuracy

Enables low-level mosaicism visualization, absence of heterozygosity (AOH) and acquired UPD (aUPD) detection, copy number change confirmation, triploidy detection, allelic imbalance pattern visualization, genomic contamination identification, trio consistency checking,and parent-of-origin analysis.

The broadest range of sample types supported – including POC FFPE

CytoScan HD Suite supports several different sample types for cancer and constitutional cytogenetic research analysis, including blood, bone marrow, buccal, saliva, fresh and frozen tissues, DBS cards, direct/cultured cells, amniocytes, and products of conception (POC), fresh and formalin-fixed, paraffin-embedded non-archived samples among others.

Robust manual or automated assay workflows–DNA to result in less than three days, including newly available CytoScan Amplification Kit

CytoScan HD Suite offers an optimized and streamlined assay with an all-inclusive reagent kit. The assay protocol makes it easy to obtain consistent and high-quality results with processes aligned with laboratory workflow requirements. CytoScan Reagent Kit is designed to save time and money, reduce error, and deliver the highest level of performance. The assay can be accomplished in 2.5 days with just 7 hours of hands-on time (or less using the automated protocol).

CytoScan Amplification Kit is now available!

CytoScan Amplification Kit (Cat. No. 902975) has been designed to be used at the PCR amplification step of the CytoScan assay and is manufactured by Takara Bio USA, Inc (Clontech). CytoScan Amplification Kit is equivalent to the Clontech Titanium™ DNA Amplification Kit (Cat. No. 639240, 300 reactions, or Cat. No. 639243, 400 reactions). The Amplification reagents in the CytoScan Amplification Kit generate PCR products to be used in the preparation of the target DNA to be hybridized to CytoScan 750K and HD Arrays. The kit contains enough reagents to prepare 400 PCR reactions–equivalent to 96-100 samples processed with the CytoScan assay.

Chromosome Analysis Suite (ChAS)–designed for cytogenetic applications

The popular ChAS Software is available free of charge as part of the CytoScan HD Suite. ChAS is tailored to cytogenetic research analysis and reporting with:

  • Streamlinedanalysis and reporting workflow
  • Ability to apply customized filters to analyze the genome at different levels of resolution
  • Options to create, modify, and upload annotation files and flag regions for focused analysis
  • A database for storage, query and visualization of samples
  • Direct access to externaldatabases such as NCBI, UCSC Genome Browser, Ensembl, and OMIM
  • Trio consistency checking for parental studies
  • Cancer-tailoredanalysis tools

First-class customer training and support

Customer training is required for the CytoScan assay for both new and existing customers. Different products are available based upon your experience level; please contact your Affymetrix Account Manager or Field Application Scientist for details.


"For Research Use Only. Not for use in diagnostic procedures."

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