Advanta Sample ID Genotyping Panel

Manage sample identity and quality using microfluidics-based DNA fingerprinting

Application

Highlights

PowerfulMonitor the identity and quality of each sample using 96 informative SNPs, including 80 exonic SNPs, providing utility for numerous genomic analysis applications.

Flexible—Easily add new targets for specific sample populations to customize.

Efficient—Maximize laboratory resources with walkaway automation. Minimize costs by using  nanoliter-scale reaction volumes and reducing superfluous testing of low-quality samples.


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OVERVIEW

Accurately tracking samples from acquisition to data analysis is important for any laboratory, especially for translational and clinical research programs, biorepositories and centralized cell line banks. Implementing a standard genotyping workflow to confirm the identity and quality of each sample prior to analysis can increase your confidence in study results.

Potential Journey of Samples

Handling errors can occur before or after samples enter the molecular laboratory or storage facility and when they are transferred among collaborating researchers or service providers.

Sample journey

Figure 1. Hypothetical journey of samples throughout the course of a research study. Specimens may be passed among individuals within a laboratory or to collaborating institutions.

ADVANTAGE

The Advanta Sample ID Genotyping Panel Advantage

The Advanta™ Sample ID Genotyping Panel is a 96-SNP assay enabling laboratories to generate a sample-specific genetic fingerprint and quality assessment from research specimens throughout the sample journey. Developed for use with the Biomark™ HD system and based on Fluidigm microfluidics, the workflow uses integrated fluidic circuits (IFCs) to precisely combine multiple reactions at nanoliter volumes. The Advanta Sample ID Genotyping Panel delivers performance you can trust with workflow efficiencies that minimize hands-on time and reagent consumption.

WORKFLOW

The Advanta Sample ID workflow features the Biomark HD system

Advanta workflow

Figure 2. The Advanta Sample ID workflow, from sample preparation through data analysis. You can process 96 samples in approximately 4 hours—with just 30 minutes of hands-on time. .

USE CASES

Laboratory use cases for sample identification and quality assessment

scenario 1

scenario 2

scenario 3

Figure 3: Examples of laboratory use cases incorporating a sample identity and quality assessment as a component of the workflow. The user determines pass/fail criteria and interpretation.

SNPs

Advanta Sample ID Genotyping Panel SNPs

The 96-SNP Advanta Sample ID Genotyping Panel was designed for use in multiple genomic analysis applications. With 80 SNPs located in exonic regions, the panel is compatible with several commercially available target enrichment and microarray-based products. The Advanta Sample ID Genotyping Panel can be an informative component in several key workflows, including whole genome and exome sequencing, targeted NGS and microarray-based genotyping. 

Advanta Sample ID Genotyping Panel SNP Content SNP compatability with commercially available genetic analysis products

Agilent Thermo Fisher Scientific Illumina
SNP ID Gene Q G P HP HE SureSelect™ Human All Exon V6 Axiom™ Biobank Genotyping Array Affymetrix™ Genome-Wide Human SNP Array 6.0 Infinium OmniExpress Infinium OmniExpress Exome Infinium CoreExome
rs952718 ABCA12 X
rs7803075 LINC-PINT X X X
rs9319336 N/A X X X X
rs2397060 PKHD1 X X X X X
rs1344870 N/A X X
rs2946788 N/A X
rs2272998 SASH1 X X
rs7229946 ZNF521 X X
rs9951171 RAB31 X X X X
rs525869 N/A X X X X X X
rs530501 IDS X X X
rs2040962 N/A X X X X
rs2032624 DDX3Y X X X X X X
rs1865680 TBL1Y X X X X X
rs17307398 N/A X X X X X
rs3795366 SIPA1L2 X X X X X X
rs2460111 TANC2 X X X X
rs1675126 INCENP X X X X X
rs1061629 AHSA1 X X X X X X
rs538847 DSCAML1 X X X X X X
rs76432344 MED13 X X X X X X
rs3750390 GOLM1 X X X X X
rs1624844 FAM178B X X X X X
rs3803390 SLC28A1 X X X X X
rs2293768 ZAN X X X X X
rs9358890 SLC17A4 X X X X X
rs11197835 ENO4 X X X X X
rs1806191 GRIN2B X X X X X X
rs7953 TMEM60 X X X X X X
rs3736757 EDEM3 X X X X X X
rs2940779 FAT4 X X X X X X
rs7522034 ANP32E X X X X X X
rs6107027 ABHD12 X X X X X X
rs2275059 PALD1 X X X X X
rs3746805 SLC52A3 X X X X X
rs4953042 LRPPRC X X X X X X
rs3817098 OR51E1 X X X X X
rs6965201 SAMD9 X X X X X X
rs5998 F13B X X X X X
rs7259333 GPATCH1 X X X X X
rs1802778 COPA X X X X X X X
rs907157 DOCK5 X X X X X X
rs8064024 ABCGLYR1 A12 X X X X X X X
rs3749970 OR12D3 X X X X X X
rs7933089 USP47 X X X X X X X
rs2292745 ITGA11 X X X X X
rs1799932 ACO2 X X X X X
rs4078313 ROBO4 X X X X X
rs2266918 ATP6V1B1 X X X X X
rs805423 PSME4 X X X X X X
rs540261 VPS11 X X X X X X X
rs3734586 SNRNP48 X X X X X X X
rs3753886 TAF5L X X X X X X
rs3210635 ASUN X X X X X X X
rs2294024 TG X X X X X
rs3812471 RNF139 X X X X X X
rs7786497 PRSS58 X X X X X X
rs1128933 MAN2C1 X X X X X X
rs4656 INPP1 X X X X X X X X
rs238148 DDX27 X X X X X X X
rs2074265 ILVBL X X X X X X X
rs11274 C20orf111 X X X X X X X
rs10069050 LYSMD3 X X X X X X X X
rs3736510 NEO1 X X X X X X
rs2304891 STIM1 X X X X X X
rs9482 ATF6 X X X X X X
rs1137930 PNO1 X X X X X X
rs1058486 XPO7 X X X X X X X
rs27529 ERAP1 X X X X X X X
rs3177137 COPE X X X X X X X
rs1043615 DNAJB9 X X X X X X X
rs1054975 THUMPD3 X X X X X X
rs1060817 PSMD5 X X X X X X
rs2232818 METTL13 X X X X X X
rs2273235 NDST1 X X X X X X
rs11054 COG4 X X X X X X
rs2236277 SERPINB6 X X X X X X
rs2293250 UBP1 X X X X X X
rs3182911 COPS3 X X X X X X
rs4799 PDIA6 X X X X X X
rs13030 PSMC5 X X X X X X X
rs547497 FRS2 X X X X X X
rs13180 IREB2 X X X X X X X X
rs957448 KIAA1429 X X X X X X
rs3108237 KIAA1430 X X X X X X X
rs164572 SLC30A5 X X X X X X
rs2175593 TARBP1 X X X X X X X
rs2306641 XPO7 X X X X X X X
rs1594 CFLAR X X X X X X
rs7300444 WNK1 X X X X X X
rs1057908 DDX23 X X X X X X
rs2152092 MMS19 X X X X X X
rs2358996 HIPK1 X X X X X X X
rs4075325 R3HDM2 X X X X X X
rs1057925 NFYC X X X X X X X X

Key: Q: Quality G: Gender P: Population HP: Highly polymorphic HE: Highly expressed

Table 1. SNP list for Advanta Sample ID Genotyping Panel. This 96-assay set includes 10 quality assessment SNPs, 6 gender SNPs, 40 exonic SNPs for population prediction (African, East Asian or European) and 40 exonic highly polymorphic SNPs with minor allele frequency near 0.5 across the 3 population groups. SNPs that are in highly expressed exons are also identified.


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