In the blog entry of this month, we want to introduce you an important tool to manage all your DNA samples: the iPLEX® Pro Sample ID for sample identification. This panel provides you a fast and highly accurate method for the identification and quantification of the quality of the samples.
Continue reading to discover more details of the possibilities offered by Agena bioscience based on the genotyping of Single Nucleotide Polymorphisms (SNPs).
- Errors in the process of sample identification
- Panel characteristics
- Workflow for complementing NGS
- iPLEX chemistry. How is it work?
- Predesigned panels from Agena bioscience for sample characterization
Errors in the process of sample identification
Even though it seems COMPLETELY IMPOSSIBLE, a sample can be mislabeled at point of origin or mixed up during transfer from one laboratory to another. Frequently, The laboratory workflows involve multiple stages, introducing numerous steps with potential for sample mishandling: an improperly sterilized pipette, a lab worker momentarily distracted a misread label, or a typo on a record sheet.
It has been estimated that 2% of samples stored in biobanks and other repositories are incorrectly annotated. This type of sample mix-up could undetermined the accuracy of results and scientific merit of translational and clinical research studies.
Another fact worth pointing out is that Translational and clinical research studies are frequently performed on archival clinical specimens, including surgical resections, fine needle aspirates, blood, and plasma. And usually, these samples are collected over many years, and varied storage environmental conditions such as temperature. And if that were not enough, this results in highly varied levels of degradation and the introduction of stabilizing agents, such as formalin, that affect the overall nucleic acid quality and quantity available for genetic analysis. All these factors highlight the clear need to ensure sample identity and integrity prior to embarking on molecular-based experiments.
Panel characteristics
The iPLEX® Pro Sample ID panel provides a highly accurate and rapid method for identification and quantification of samples. Designed with over than 50 markers in a single-well assay, the panel presents a cost-effective solution for sample authentification.
The panel contains 44 SNPs, 3 assays for gender identification, and 5 controls to quantify from as little as 500 to 18,000 amplifiable copies (1ng to 60 ng) of DNA.
Gender markers (3) utilize chromosome X/Y paralog sequences where the 2 paralogues can be co-amplified by a single PCR primer pair and distinguished with the single base extension assays by differential bases or short INDEL.
Sample quality and quantity markers (5 X DNA copy number control assays) utilize competitive PCR with an internal synthetic template for quantification of absolute numbers of starting intact template.
For more information, on the next webinar we show you the main characteristics of the panel iPLEX® Pro Sample ID:
Workflow for complementing NGS
The MassARRAY® system provides a unique solution for preanalytical characterization, as well as confirmation of the identification of samples for other molecular biology assays. The use of this panel allows the user to: authenticate and characterize the samples before a Next Generation Sequencing (NGS) analysis, confirm orthogonally variants and analyze the quality of the samples.
iPLEX chemistry. How is it work?
One of the main advantages of the technology is its workflow, with only 8 hours to obtain data and only 30′ of manual process. Check our blog entry dedicated to the genotyping of SNPs through the MassARRAY® platform for more information.
Predesigned panels from Agena bioscience for sample characterization
Agena bioscience panels are designed to be used with the MassARRAY® platform, these panels provide information regarding the quality and the quantity of DNA before to perform a NGS analysis.
Si quieres más información, puedes retomar el post en el que te hablamos sobre biopsia líquida y los paneles Ultraseek o bien el post en que te presentamos los paneles de Agena bioscience dedicados a farmacogenética.
¿Tienes dudas?
Si no te queda claro del todo cómo funciona esta tecnología, o quieres que te ayudemos a configurar tu ensayo, nuestro departamento técnico de especialistas, con amplia trayectoria en investigación (todos PhD), te pueden echar una mano: por mail (tecnic@labclinics.com), por tlf +34.934464700 o de forma presencial. Contáctanos y estaremos encantados de poder ayudarte!
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