EmbgenixTM GT-omics Kit

Description

The Embgenix GT-omics Kit integrates bead-based DNA/RNA enrichment along with PicoPLEX whole-genome amplification WGA , SMART-Seq cDNA synthesis technologies, and Takara Bios patented library preparation chemistry to generate high-quality Illumina-ready DNA-seq and RNA-seq libraries from the same sample for multiomic analysis. Each kit includes sufficient reagents and materials for processing 96 samples. Our products are to be used forResearch 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. Back Embgenix GT-omics workflow. On Day 1, single cells or a trophectoderm TE biopsy consisting of 35 cells are lysed. Polyadenylated mRNA is captured using oligo dT -coated magnetic beads, while gDNA remains in the supernatant. cDNA is synthesized from bead-bound mRNA, and gDNA undergoes whole-genome amplification in separate tubes. On Day 2, RNA and DNA-seq libraries are prepared. Libraries are then pooled, sequenced, and analyzed using Embgenix Analysis Software and Cogent NGS tools. Back Single-cell CNV analysis using the Embgenix GT-omics Kit and Embgenix Analysis Software. The Embgenix GT-omics Kit was used to generate DNA-seq and RNA-seq libraries from six single-cell replicates derived from the well-characterized lymphoblastoid cell line, GM08331. DNA-seq libraries were sequenced at a depth of 1.5 million paired-end reads per cell and analyzed using Embgenix Analysis Software.Panel A.CNV plots displaying normalized counts of sequencing reads mapped to 1 Mb bins across each chromosome for each single-cell replicate. A segmental loss at chromosome 13 was identified in all replicates.Panel B.Sample classification, karyotype, and corresponding QC metrics for each replicate. Total reads denotes the total number of sequencing reads submitted for analysis, while informative reads represents the quantities of sequencing reads that were successfully mapped and used for CNV analysis. DLRS derivative log ratio spread quantifies signal noise, serving as a key metric for evaluating data suitability for accurate CNV analysis. QC Status indicates whether a sample met predefined thresholds for % informative reads and DLRS, ensuring data quality for downstream analysis. Back Single-cell transcriptome analysis using the Embgenix GT-omics Kit and Cogent NGS tools. RNA-seq data was produced for six replicates from the GM08331 cell line. The bar chart depicts the distributions of sequencing reads mapped to exonic, intronic, mitochondrial, rRNA, and intergenic regions for each sample. Gene count represents the number of unique genes detected for each replicate based on mapping of RNA-seq data. Back CNV analysis of TE biopsies using the Embgenix GT-omics Kit and Embgenix Analysis Software.Panel A.CNV plots displaying normalized counts of sequencing reads mapped to 1 Mb bins across each chromosome for four pairs of trophectoderm TE biopsy samples with each pair of samples derived from the same embryo and one control sample derived from the lymphoblastoid cell line GM08331. Aneuploid and mosaic calls are marked with arrows.Panel B.Automated sample classification, karyotype calls, and corresponding QC metrics for each sample analyzed. Alternative assay result refers to CNV calls obtained for each embryo via analysis of a separate biopsy sample with a comparable assay. Total reads denotes the total number of sequencing reads submitted for analysis, while informative reads represents the quantities of sequencing reads that were successfully mapped and used for CNV analysis. DLRS derivative log ratio spread and mean absolute pairwise difference MAPD quantify signal noise, serving as key metrics for evaluating data suitability for accurate CNV analysis. NME noise metric euploid is an additional noise metric intended for assessing assay performance across experiments. QC Status indicates whether a sample met predefined thresholds for informative reads and DLRS, ensuring data quality for downstream analysis. Back Transcriptome analysis of TE biopsy samples using the Embgenix GT-omics Kit and Cogent NGS tools. RNA-seq data was produced from trophectoderm TE biopsy samples across four embryos two separate TE biopsies per embryo .Panel A.Distribution of sequencing reads mapped to exonic, intronic, mitochondrial, ribosomal, and intergenic regions for each TE biopsy sample. Gene count represents the number of unique genes detected for each replicate based on mapping of RNA-seq data.Panel B. Gene-body coverage of RNA-seq libraries generated from TE biopsy samples. Back Assessment of transcriptomic accuracy with synthetic RNA spike-in standards. External RNA Controls Consortium ERCC standards were combined with five-cell samples derived from the GM05067 cell line at two different dilution levels low vs. high , generating four distinct RNA concentration conditions. Samples were processed in triplicate using the Embgenix GT-omics Kit and resulting RNA-seq libraries were sequenced, downsampled to 4 x 106reads per sample, and analyzed using a custom analysis pipeline.Panel A. Pearson correlation matrix illustrating the relationships between measured quantities of the 92 synthetic ERCC spike-in RNA species across two formulations Mix1 vs. Mix2 .Panel B. Scatter plot comparing the measured fold changes of the 92 ERCC spike-in RNA species Y-axis to their expected fold changes X-axis at four different concentrations. Each dot represents an individual RNA species, with spiked-in concentrations indicated by the color gradient to the right of the plot.