A consortium-built SNP-based microarray providing thorough coverage of 3262 cytogenetically relevant genes for constitutional and cancer research.
Sample throughput
Number of samples
Number of markers
The Infinium CytoSNP-850K BeadChip is the first SNP-based human microarray to leverage the latest input from the international community for cytogenomics studies.
The gene list was defined based on content from the International Collaboration for Clinical Genomics (ICCG)1 and the Cancer Genomics Consortium (CGC)2, providing a thorough view of cytogenomic activity.
The use of long 50-mer probes with high specificity to the SNP target increases sensitivity for low-level mosaics3 and offers high resolution for copy-neutral loss of heterozygosity (LOH). High 15× bead redundancy increases the signal-to-noise ratio for making accurate CNV and absence of heterozygosity (AOH) calls across the genome.
| Assay time | 3 days |
|---|---|
| Assay type | Infinium HD Super |
| Automation capability | Liquid Handling Robots, Automated Array Loader |
| Cancer type | Hematologic, Solid Tumor |
| Description | The Infinium CytoSNP-850K BeadChip enables high-resolution analysis for discovery of meaningful chromosomal aberrations through disease-focused coverage of 3262 genes of known cytogenetics relevance. |
| Hands-on time |
1 hr 5 min for automated 8-beadchip workflow, 6 hr 15 min for manual 8-beadchip workflow |
| Input quantity | 200 ng DNA |
| Instruments | NextSeq 550 System, iScan System |
| Method | Genome-Wide Genotyping Array, Cytogenomic Array |
| Nucleic acid type | DNA |
| Number of markers |
Fixed markers: ~848,000 Custom marker add-on capacity: none |
| Number of samples | 8 samples per array |
| Sample throughput |
960 samples/week on an iScan System (with automation, 24 BeadChips/batch, and 2 batches/FTE/Tecan per week). 128 samples/week on a NextSeq 550 System (with 8 BeadChips/batch and 2 batches/FTE/Tecan per week). |
| Specialized sample types | FFPE Tissue, Blood, Saliva |
| Species category | Human |
| Technology | Microarray |
| Variant class | Single nucleotide polymorphisms (SNPs), Loss of heterozygosity (LOH), Chromosomal abnormalities, Copy number variants (CNVs) |
Match your chosen kit size to the number of samples you run at a time. Each kit is processed as a single batch and is not designed to be divided across multiple experiments. If you are processing several low-throughput batches, order multiple small kits.
The Infinium CytoSNP-850K BeadChip microarray includes ~850K SNPs spanning the genome and provides enriched coverage for 3262 genes of known relevance to enable researchers to study the impact of chromosomal aberrations for constitutional and cancer applications.
Infinium CytoSNP-850K BeadChip
Together, next-generation sequencing and arrays enable cytogenomic analysis of chromosome aberrations for constitutional and cancer research.
Chromosomal microarray analysis for constitutional cytogenetics
Chromosomal microarrays reliably detect copy number and allelic contribution imbalances associated with constitutional disorders.
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| Infinium CytoSNP-850K BeadChip | Infinium Global Diversity Array with Cytogenetics-8 | Infinium Global Screening Array with Cytogenetics-24 |
|---|
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The Infinium CytoSNP-850K BeadChip contains ~ 850K empirically selected single nucleotide polymorphisms (SNPs) spanning the genome. This high density of SNPs enables high-resolution analysis for discovery of meaningful chromosomal aberrations.
| Probe spacing | Average distance |
| Targeted region probe spacing |
~1 kb |
| Targeted region resolution |
~10 kb |
| Genomic backbone probe spacing |
~5 kb |
| Overall probe spacing |
~1.8 kb |
| Overall effective resolution |
~18 kb |
| Marker categoriesb | iScan System |
| Total no. of markers |
848,902 |
| RefSeq genes |
467,422 |
| RefSeq +/- 10 kb |
541,515 |
| ADME genes |
15,153 |
| ADME +/- 10 kb |
18,590 |
| COSMIC genes |
418,131 |
| HLA markers |
5145 |
| HLA genes |
276 |
| GO genes |
137,873 |
| Exonic regions |
68,801 |
| Promoter regions |
26,814 |
| X chromosome markers |
29,894 |
| Y chormosome markers |
1197 |
| PAR/homologous markers |
728 |
a. Values are obtained from the assay manifest file. Variations are due to different manifests/product files required to process the BeadChip for each instrument.
b. Compared against the human genome issue hg19 reference genome. Abbreviations: ADME, adsorption, distribution, metabolism, excretion; COSMIC, catalog of somatic mutations in cancer; MHC, major histocompatibility complex; HLA, human leukocyte antigen; PAR, pseudoautosomal region
Learn about the comprehensive suite of Infinium microarray products designed to deliver exceptional data quality and high-density genomic coverage for targeted and whole genome studies.
Infinium CytoSNP-850K v1.4 Beadchip Kit (8 Samples)
20103480
Optimized for constitutional and cancer cytogenetics applications. The BeadChip can process 8 samples and analyze 850,000 single nucleotide polymorphisms (SNPs) for both copy number variants (CNVS) and absence of heterozygosity (AOH). Each package contains 1 BeadChip, along with reagents for amplifying, fragmenting, hybridizing, labeling, and detecting CNVs and AOH for 8 DNA samples.
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Infinium CytoSNP-850K v1.4 Beadchip Kit (16 Samples)
20103481
Optimized for constitutional and cancer cytogenetics applications. The BeadChip can process 8 samples and analyze 850,000 single nucleotide polymorphisms (SNPs) for both copy number variants (CNVS) and absence of heterozygosity (AOH). Each package contains 2 BeadChips, along with reagents for amplifying, fragmenting, hybridizing, labeling, and detecting CNVs and AOH for 16 DNA samples.
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Infinium CytoSNP-850K v1.4 Beadchip Kit (48 Samples)
20103482
Optimized for constitutional and cancer cytogenetics applications. The BeadChip can process 8 samples and analyze 850,000 single nucleotide polymorphisms (SNPs) for both copy number variants (CNVS) and absence of heterozygosity (AOH). Each package contains 6 BeadChips, along with reagents for amplifying, fragmenting, hybridizing, labeling, and detecting CNVs and AOH for 48 DNA samples.
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Infinium CytoSNP-850K v1.4 Beadchip Kit (96 Samples)
20103483
Optimized for constitutional and cancer cytogenetics applications. The BeadChip can process 8 samples and analyze 850,000 single nucleotide polymorphisms (SNPs) for both copy number variants (CNVS) and absence of heterozygosity (AOH). Each package contains 12 BeadChips, along with reagents for amplifying, fragmenting, hybridizing, labeling, and detecting CNVs and AOH for 96 DNA samples.
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FFPE samples can be run on CytoSNP-850K with the Infinium FFPE QC Kit and the Infinium FFPE Restore Kit.
FFPE-specific manifest and cluster files can be downloaded on the CytoSNP-850K support page.
A batch Import file can be created using the CytoSNP-850K Lab Planner tool. Once the batch import .txt file has been generated, go to File|Batch|Batch Import, locate the batch import file, then click Open.
More information can be found in the Import 24sure and BeadArray Experiments section of the BlueFuse Multi Software Guide.
Advanced chemistry, optics, and informatics combine to deliver exceptional speed and data quality, outstanding throughput and scalability.
Optimized reagent kit that provides increased cluster density and read length, improving sequencing quality scores compared to earlier versions.
Enable CGP with a large pan-cancer panel covering all major variant classes plus gene signatures (TMB, MSI, and HRD) from FFPE tissue.
A fast, integrated workflow for preparing libraries for use in a wide range of sequencing applications.
Comprehensive sequencing research panels targeting disease-associated regions of the exome with high analytical sensitivity and specificity.
Evaluate sample quality and repair degraded FFPE DNA samples for use in Infinium array-based assays.
Robust methylation profiling microarray providing extensive coverage of CpG islands, genes, and enhancers for epigenome-wide association studies.
References:
1. Clinical Genome Resource. www.clinicalgenome.org. Accessed December 12, 2022.
2. Cancer Genomics Consortium. www.cancergenomics.org. Accessed December 12, 2022.
3. Conlin LK, Thiel BD, Bonnemann CG, et al. Mechanisms of mosaicism, chimerism and uniparental disomy identified by single nucleotide polymorphism array analysis. Hum Mol Genet. 2010;19(7):1263-75. doi: 10.1093/hmg/ddq003.
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