Affymetrix portfolio for molecular cytogenetics

Affymetrix products for molecular cytogenetics applications have a strong track record of proven performance in unlocking the genetic mechanisms of disease. Our molecular cytogenetics portfolio includes multiple array formats and a service offering that allows cytogeneticists to capture more chromosomal aberrations with superior coverage, content, and performance.

Molecular Cytogenetics
Click to enlarge
Molecular Cytogenetics

Using Affymetrix arrays alone, or in conjunction with fluorescent in situ hybridization (FISH), enables you to maximize your discoveries and find relevant chromosomal aberrations. Cytogenetics laboratories rely on the proven performance of Affymetrix arrays and many leading investigators have published using our platform.

Whether you specialize in constitutional or cancer genetics, Affymetrix offers an array to fit your study's needs. Our products have demonstrated strong performance on a variety of sample types, including saliva, blood, FFPE, and fresh and frozen tissue. Affymetrix arrays require low amounts of sample DNA and are priced to meet various budget levels.

Learn more about Affymetrix products based on your area of expertise:

Constitutional cytogenetics

Constitutional cytogenetics refers to the study of the molecular aspects of heredity, chromosome structure, and the identification of genetic aberrations and variants linked to disease.

Read more >

Affymetrix® Genome-Wide Human SNP Array 6.0

Numerous peer-reviewed publications have identified the SNP Array 6.0 as the leading microarray platform for cytogenetic studies.

This high-density array has more than 1.8 million markers, including 946,000 probes for the detection of copy number variants and 906,600 SNPs. With the most de novo copy number content and the most comprehensive coverage of the X and Y chromosome of any array on the market, the SNP Array 6.0 outperforms other array-based platforms for cytogenetics.

The SNP Array 6.0 can be used for the following constitutional cytogenetic applications:

  • Conducting gene-level autozygosity mapping studies
  • Assessing parent of origin for copy number changes
  • Estimating low levels of mosaicism for small copy number changes
  • Defining breakpoints with higher resolution
  • Assessing copy-number-neutral loss of heterozygosity
  • Detecting uniparental disomy (UPD) and regions identical by descent due to consanguinity

Cancer cytogenetics

Cancer is a highly complex disease that can encompass multiple genomic alterations in the progression from a normal cell to a disease state. In the past decade, research has increasingly shown that copy number gain or loss and rearranged chromosomal regions are associated with cancer susceptibility, cancer resistance, and drug sensitivities. These structural variants can be inherited, but many are caused by spontaneous, or de novo, mutations.

Read more >

Affymetrix Genome-Wide Human SNP Array 6.0

Numerous peer-reviewed publications have identified the SNP Array 6.0 as a leading platform for cytogenetic studies. The SNP Array 6.0's strength in the cancer market is for blood-based cancers; however, researchers have also published cytogenetic studies on breast, colorectal, endometrial, ovarian, and prostate cancers.

This high-density array has more than 1.8 million markers, including 946,000 probes for the detection of copy number variants and 906,600 SNPs. The assay uses a PCR-based amplification step, like FISH, which maintains data integrity if FISH is used to validate your discovery. With the most de novo copy number content and the most comprehensive coverage of the X and Y chromosome of any array on the market, the SNP Array 6.0 outperforms other array-based platforms for cytogenetics.

The SNP Array 6.0 can be used for the following cancer cytogenetic applications:

  • Assessing loss of heterozygosity (LOH) and uniparental disomy (UPD), which is now known to constitute 50 to 80 percent of LOH in human cancers
  • Discriminating fine chromosomal breakpoints
  • Defining parent of origin for copy number changes
  • Estimating low levels of mosaicism
  • Determining gene-level autozygosity mapping

OncoScan™ FFPE Express Service

The Affymetrix Research Services Laboratory (ARSL) offers a convenient and reliable alternative for problematic FFPE samples. The OncoScan FFPE Express Service is the only single platform that offers high-quality copy number, genotype, and somatic mutation data with whole-genome coverage and high resolution in cancer genes for FFPE samples. Take advantage of our expertise and receive data of unparalleled quality with the the OncoScan FFPE Express Service.

GeneChip® Human Mapping 250K Nsp Array

The GeneChip® Human Mapping 250K Nsp Array is a subset of the GeneChip® Human Mapping 500K Array Set. This lower-density, cost-effective solution enables screening of the entire genome for gross abnormalities. The array has probes for genotyping 262,000 SNPs and each marker can be interrogated with up to five probes, ensuring cross-verification for data integrity.

The Human Mapping 250K Nsp Array has the most extensive publication database compared to other similar arrays. Researchers have published on cytogenetic studies for in blood and solid tumor cancers.

The Human Mapping 250K Nsp Array can be used for the following cancer cytogenetic applications:

  • Assessing loss of heterozygosity (LOH) and uniparental disomy (UPD), which is now known to constitute 50 to 80 percent of LOH in human cancers
  • Determining gross chromosomal breakpoints
  • Defining parent of origin for copy number changes

Back to Top >