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Agilent Solutions for Cancer Cytogenetics Research

Agilent’s cancer cytogenetics solutions offer industry’s most complete comparative genome hybridization (CGH) workflow from sample QC to data interpretation. Our platform allows for sensitive and accurate genome-wide analysis of CNCs and cnLOH for a diverse range of sample types. Agilent CGH microarrays have established the standard of excellence for characterization of aberrations, with more than 15 years of research use and 14,000 published papers.

For Research Use Only. Not for Use in Diagnostic Procedures.

 

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Agilent Solutions for Cancer Cytogenetics Research

Not only does Agilent offer both custom and catalog CGH microarrays, we also offer absolutely everything you need to process the arrays, from sample quality control to data interpretation.   Explore the links below to find out about our broad portfolio CGH products for cancer cytogenetics.


Featured Video

Agilent offers a choice of cancer-focused catalog CGH and custom microarray designs to meet your cancer research needs. Both leverage our state-of-the-art oligo synthesis chemistry and manufacturing platform. Custom array design is intuitive and fast and is accomplished using Agilent's online SureDesign CGH design wizard. Watch this tutorial video to learn how to create and order a custom CGH array in SureDesign.  Use Agilent's customization capabilities to your advantage!


Featured Literature

Download this application note: Agilent CGH+SNP Microarrays Demonstrate Superior Copy Number Calling for Cytogenetic Profiling of Hematological Cancer Samples.



GenetiSure Cancer Research CGH+SNP Microarray (2x400K)

The GenetiSure Cancer Research CGH+SNP microarray targets genomic cancer regions from COSMIC and CGC databases. Exon-level CNV resolution and cnLOH detection are validated down to 2.5 MB resolution.

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CGH & CGH+SNP Microarray Reagents

The SureTag Kit generates cyanine-labeled genomic DNA targets with high signal-to-noise ratio and low probe-to-probe variability.

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CGH & CGH+SNP Microarray Buffers

Our reagents include a solution for ozone control, and CGH Hybridization and Wash Buffers for microarray processing. All buffers provide optimal performance for CGH tests using Agilent arrays.

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Microarray Scanner

The SureScan scanner is the foundation of our microarray system, powering Agilent’s CGH microarray platform for over 15 years. SureScan is part of an integrated platform designed for scalable, sensitive and reproducible copy number analysis and copy neutral LOH detection.

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SureDesign Software

SureDesign is a web-based application which allows you to create custom CGH microarrays from our database of over 28 million highly curated probes. Your Agilent microarray can then be manufactured to order, using the same robust process as our catalog products.

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CGH & CGH+SNP Microarray Software

CytoGenomics is a cytogenetics research software designed to streamline your workflow for processing, analyzing, and reporting of cytogenetic measurements. This includes CNCs and cnLOH generated with a diverse range of human sample types on Agilent CGH-only and CGH+SNP microarrays.

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Alissa Clinical Informatics Platform

The Alissa Clinical Informatics Platform enables variant assessment for structural variants including CNVs, LOH, and translocations. Alissa helps labs reduce turnaround time by automating variant classification, curation, and annotation by connecting to relevant knowledge resources.

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FAQ

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The ability to detect copy number changes in single exons in clinical research samples may be important in identifying aberrations that regulate disease susceptibility and risk.

  • Approximately 5-6%1 of gene mutations that are important in identifying inherited disorders are copy number changes, either deletions or duplications.


Exon-level deletions and duplications may not be detected by NGS due to size, and therefore complimentary approaches are needed.1


1Reference: Eur J Hum Genet. 2014 Jan;22(1):79-87

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3865406/

Yes, very small copy number changes in regions associated with disease can be identified.  For example, both Agilent’s GenetiSure Cancer CGH+SNP Research 2x400K microarray and GenetiSure Postnatal CGH+SNP Research 2x400K microarray contain nearly 300,000 CGH probes, allowing for the detection of small aberrations in regions that are significant for cancer studies.

Low level mosaicism, as low as 8%2, can be picked up, eliminating the need to enrich for tumor cells. Clonal fraction estimation is reported out in Agilent's CytoGenomics Software, providing value add to the analysis.


2 Agilent CGH+SNP Microarrays Demonstrate Superior Copy Number Calling for Cytogenetic Profiling of Hematological Cancer Samples (https://www.agilent.com/cs/library/applications/5991-0409EN.pdf)

Valli et al. Molecular Cytogenetics 2011, 4·13)

LOH of 5-10 Mb is suggested by ACMG guidelines for significance. However, if you want to future-proof your data, Agilent arrays have improved resolution down to 2.5 Mb. Some array manufacturers have a lower theoretical LOH resolution, however, it is unclear if this provides any meaningful benefit and may increase the chance of false positives in your data. In addition, Agilent’s true copy number and SNP probe platform can confidently call copy number and copy-neutral events, providing advantages in data quality over SNP-centric platforms.

Designing in SureDesign, Agilent's free online design application, has never been easier. There are many benefits in designing your own microarrays and Agilent is leader in customization.

Targeted microarrays enable cancer researchers to focus on genomic regions that are associated with disease.  A combination of targeted probe content for selected genomic regions at high resolution and genome-wide probe coverage at lower resolution is the ideal microarray design choice for most applications. This approach has been supported by key consortia such as the Cancer Genomics Consortium (CGC/CCMC).


The flexibility of Agilent's microarray customizable probe content offers real-time customization to meet your exact needs.


This key feature offers laboratories the ability to respond to new genetic discoveries and associations as they are being made on a daily basis, and these new findings may suggest opportunities to modify probe content as the data becomes available.


Agilent’s customization capabilities are backed by over 15 years of quality, flexibility and experience.  Our SurePrint oligo synthesis technology is a proven platform that is flexible to accommodate your unique requirements and delivers catalog-quality probes for custom designs. Tap into SureDesign and select from a database of 28 million probes to input target genes of interest and create a design that fits your needs.

Custom arrays do not cost more than arrays with pre-designed content and, whether ordering 1 or 100s of custom arrays, our platform delivers flexibility to meet your growing needs