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  • Embgenix PGT-A Kit (RUO)
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Decorative image of a pipette touching a droplet in a dish Embgenix ESM Screen technote
Bioinformatics software Embgenix Analysis Software for ESM Screen Kit
Embgenix PGT-A Kit (RUO) product information
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Decorative image of a pipette touching a droplet in a dish Embgenix ESM Screen technote
Bioinformatics software Embgenix Analysis Software for ESM Screen Kit
Embgenix PGT-A Kit (RUO) product information

Embgenix ESM Screen Kit

The Embgenix ESM Screen Kit is a Research Use Only (RUO) kit designed to evaluate chromosome copy number variation (CNV) using noninvasive samples collected during an IVF cycle, including embryo spent media (ESM) and/or blastocoel fluid. All 24 chromosomes (22 autosomes + 2 sex chromosomes) can be screened for the identification of whole-chromosome and segmental aneuploidies, as well as mosaicism (with limited thresholds).

The Embgenix ESM Screen Kit is a Research Use Only (RUO) kit designed to evaluate chromosome copy number variations (CNVs) using noninvasive samples collected during an IVF cycle, including embryo spent media (ESM) and/or blastocoel fluid. All 24 chromosomes (22 autosomes + 2 sex chromosomes) can be screened for the identification of whole-chromosome and segmental aneuploidies, as well as mosaicism (with limited thresholds).

This kit was optimized for handling larger volumes of the input material, and it comes with a quantification kit for the accurate determination of cfDNA present in noninvasive samples. This kit uses next-generation sequencing (NGS) technology as the detection method and is compatible with all Illumina sequencers. 

To streamline the generation of sequencing libraries, the kit utilizes the gold-standard PicoPLEX whole genome amplification (WGA) and patented library-prep technology with unique dual indexes (UDIs). PicoPLEX quasi-random priming technology is widely recognized for accurate and reproducible detection of aneuploidies and CNVs from single cells and low-input DNA. The simple protocol dramatically speeds time to results while reducing handling errors and background. The library-prep workflow (fragmentation, repair, ligation, amplification, and indexing) completes in about two hours in a single tube. No intermediate purification steps or sample transfers are necessary, minimizing the potential for loss and mix-up of samples.

After sequencing, data analysis and reporting are performed using our specialized, cloud-based bioinformatics pipeline, Embgenix Analysis Software (RUO), with its advanced ESM workflow designed for noninvasive samples. The algorithm accurately determines CNVs by using bin counts to calculate chromosome copy numbers (CCNs) against an internally configured reference. The software provides options for automated and/or manual calls for whole-chromosome and segmental aneuploidies, as well as mosaicism. Data can be conveniently visualized in a chart or an idiogram plot. The software supports downloadable PDF reports, which can be customized for individual laboratory needs.

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Cat. # Product Size Price License Quantity Details
634782 Embgenix™ ESM Screen Kit Each Inquire for Quotation

License Statement

ID Number  
326 This product is protected by U.S. Patents 7,803,550; 8,399,199; 8,728,737, 9,598,727, 10,196,686, 10,208,337, 11,072,823 and corresponding foreign patents. Additional patents are pending. For further license information, please contact a Takara Bio USA licensing representative by email at licensing@takarabio.com.
328 This Product is protected by one or more patents from the family consisting of: CH1604040, CH2374900, US8206913, US10837049, US11661628, US11492663, DE602004029560.4, DE602004049599.9, DK1604040, DK2374900, EP1604040, EP2374900, FR1604040, FR2374900, UK1604040, UK2374900, HK1089485, IE1604040, IE2374900, JP4773338, NL1604040, NL2374900, SE1604040, SE2374900 and any corresponding patents, divisionals, continuations, patent applications and foreign filings sharing common priority with the same family.
423 This Product is protected by one or more patents from the family comprising: US2021/0381035 and any corresponding patents, divisionals, continuations, patent applications and foreign filings sharing common priority with the same family.
*

The ESM Screen Kit is based on PicoPLEX WGA technology and yields sequencing libraries from noninvasive samples for evaluation of copy number variation (CNV). This product contains reagents for 96 reactions and unique dual indexes for multiplexing. It is compatible with 30 µl of embryo spent media. This kit has been tested with several commercially available media that are commonly used in IVF labs. 

The kit features a streamlined, three-step workflow along with an optional DNA quantification step. In the first step, cfDNA is released and purified with magnetic beads. The second step is the WGA reaction, which uses the DNA template from step one for preamplification, then amplification using a proprietary, quasi-linear amplification approach. This approach reduces false signals in the final libraries by ensuring that low-level errors introduced during PCR are not amplified. In the third step, a streamlined workflow generates Illumina sequencing libraries using our proprietary SMART technology and unique dual indexes. After sequencing, data analysis and reporting are performed using Embgenix Analysis Software (RUO) with advanced ESM workflow.

Notice to purchaser

Our products are to be used for Research Use Only. They may not be used for any other purpose, including, but not limited to, use in humans, therapeutic or diagnostic use, or commercial use of any kind. Our products may not be transferred to third parties, resold, modified for resale, or used to manufacture commercial products or to provide a service to third parties without our prior written approval.

Documents Components Image Data

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Embgenix ESM Screen workflow

Embgenix ESM Screen workflow

Embgenix ESM Screen workflow. Starting with cell-free DNA from embryo spent media (ESM), three steps produce Illumina sequencing libraries for non-invasive evaluation of embryo chromosome copy number variation.

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Assessment of Embgenix ESM assay performance based on timing of sample collection

Assessment of Embgenix ESM assay performance based on timing of sample collection

Assessment of Embgenix ESM assay performance based on timing of sample collection. Concordance of ESM assay and PGT‑A results was assessed for ESM samples collected at varying time points following in vitro fertilization. ESM and PGT‑A results that both yielded an abnormal (aneuploid/mosaic) or normal (euploid) call were classified as concordant ("total chr concordance") as were results that both yielded a male or female call ("sex chr concordance"). Average concentrations and amounts of cfDNA in the ESM samples were also determined.

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Assessment of Embgenix ESM assay performance based on embryo culturing conditions

Assessment of Embgenix ESM assay performance based on embryo culturing conditions

Assessment of Embgenix ESM assay performance based on embryo culturing conditions. Concordance of ESM assay and PGT‑A results was compared for ESM samples collected on Day 6 or 7, depending on whether embryos were subjected to assisted hatching. ESM and PGT‑A results that both yielded an abnormal (aneuploid/mosaic) or normal (euploid) call were classified as concordant ("total chr concordance") as were results that both yielded a male or female call ("sex chr concordance").

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Comparison of the Embgenix ESM assay versus conventional PGT-A

Comparison of the Embgenix ESM assay versus conventional PGT-A

Comparison of the Embgenix ESM assay versus conventional PGT-A. CNV plots obtained from analysis of corresponding spent media and trophectoderm biopsy samples using the Embgenix ESM assay and VeriSeq PGS Kit, respectively. Panels A and B. Results indicating euploid status in embryo spent media and trophectoderm biopsy samples from the same IVF embryo, using Embgenix ESM (Panel A) and VeriSeq PGS (Panel B) assays, respectively. Panels C and D. Results indicating monosomy at chromosome 4 in an IVF embryo using Embgenix ESM (Panel C) and VeriSeq PGS (Panel D) assays.

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CNV classifications applied by Embgenix Analysis Software

CNV classifications applied by Embgenix Analysis Software

Copy number variant (CNV) classifications applied by Embgenix Analysis Software. Classification categories are listed from highest to lowest priority. Samples interpreted to have multiple different CNVs are classified according to the CNV with the highest priority.

*You must be logged in to a Purchasing Account in order to purchase these products online, since the purchase of these products may be restricted depending on your account type. Researchers at not-for-profit accounts receive a limited use license with their purchase of the product. Researchers at for-profit accounts must obtain a license prior to purchase. For details please contact licensing@takarabio.com.

Overview

  • Complete workflow for CNV analysis of noninvasive samples collected in an IVF lab, including spent embryo culture media and blastocoel fluid
  • PicoPLEX WGA technology for successful amplification of low-input and fragmented DNA
  • Single-step WGA with reduced hands-on time and library prep with enzymatic fragmentation
  • Larger input volumes for increased resolution, accommodating 30 μl of culture medium
  • Scalable workflow for multiple throughputs (24–96 samples)
  • Compatible with MiSeq® and NextSeq® 500/550 Illumina sequencers
  • Increased sequencing power with UDIs included to allow pooling of multiple samples and reliable sequencing
  • Data processed easily using Embgenix Analysis Software (RUO) with the advanced ESM workflow option, which is optimized for noninvasive samples

More Information

Applications

  • CNV detection in embryo spent media and blastocoel fluid
  • Preimplantation genetic testing for aneuploidies in research samples

Additional product information

Please see the product's Certificate of Analysis for information about storage conditions, product components, and technical specifications. Please see the Product Components List to determine kit components. Certificates of Analysis and Product Components Lists are located under the Documents tab.


Bioinformatics solution for this kit

Embgenix Analysis Software for ESM Screen Kit

Embgenix Analysis Software for ESM Screen Kit is a cloud-based bioinformatics software for analysis of sequencing data producing using the Embgenix ESM Screen Kit.


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