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CSHL Single Cell Analyses meeting
Takara Bio attended the Cold Spring Harbor Laboratory (CSHL) 2019 Single Cell Analyses meeting, which is specifically designed to foster creative interactions between researchers developing new, cutting-edge techniques in single-cell analysis of bacterial, yeast, plant, and animal systems.
At this meeting, we introduced the new SMART-Seq Single Cell Kit for full-length single-cell RNA-seq and the automated ICELL8 cx platform for unparalleled flexibility and confidence in developing your high-throughput single-cell assays.
We're looking forward to seeing you at CSHL Single Cell Analyses 2020. In the meantime, we invite you to review our 2019 posters, learn about our plate-based and automated full-length applications, and reach out to us with any questions or requests via the "speak with us" link below.
CSHL Single Cell Analyses 2019: posters
Unprecedented sensitivity with SMART-Seq single cell technology
Since the emergence of next-generation sequencing (NGS), the importance of and demand for single-cell analysis have risen rapidly. Extracting meaningful biological information from the small amount of mRNA present in each cell requires an RNA-seq preparation method with exceptional sensitivity and reproducibility. To date, the SMART-Seq v4 kit (SSv4) has been the most sensitive commercial single-cell RNA-seq method, in part due to its incomparable capability to retrieve information from full-length mRNA and not just the 3′ end. However, there is still room for improvement for extremely challenging samples such as cells with very low RNA content or nuclei. To address this need, we have further modified our core technology to create a new chemistry with higher sensitivity—the SMART-Seq Single Cell Kit—that outperforms all current commercial and noncommercial full-length methods, particularly with as little as 2 pg of total RNA. When validating with a B lymphocyte cell line or peripheral blood mononuclear cells from a healthy donor, we were able to detect 50–60% more genes with the new chemistry compared to current methods. The improvement in sensitivity was associated with a clear reduction of the dropout rate as well as an increase in reproducibility. In addition, the new SMART-Seq single cell (SSsc) chemistry generates a high yield of cDNA, which is extremely useful when dealing with difficult cells such as clinical samples that tend to carry very low RNA content.
Sensitivity of gene fusion detection from high-throughput SMART-Seq chemistry on the ICELL8 system
The use of next-generation sequencing for transcriptome analysis in clinical and applied spaces requires accurate, parallel processing of large numbers of samples and the availability of chemistries that enable robust library preparation from the desired targets. The method chosen for library preparation—for example, end-capture versus full-length transcript capture—will yield different quality data to aid in answering specific questions about gene expression. Full-length capture, which provides more uniform coverage of the transcript, enables more thorough examination of gene fusions, SNP detection, and alternative splicing over other methods that capture only the 3′ or 5′ end of the transcript. The application of our full-length SMART-Seq chemistry on the ICELL8 system provides a high-throughput solution to obtaining richer data on single-cell transcriptomics. We identified fusions in a solid tumor cell line as well as in a leukemia cell line using this application that could not be identified with a 3′ DE approach, with fusions discovered in more than three times as many single cells. This method can also be used to obtain a full understanding of the immune response in single immune cells by combining cell type identification with paired T-cell receptor and B-cell receptor information—all obtained using different analyses of a single whole transcriptome assay. This sensitive SMART-Seq method for automated, full-length RNA-seq offers benefits in increased gene body coverage, enabling improved detection of fusions, SNPs, and splice variants—applications that will aid in the advancement of biomarker identification and the development of novel therapeutics.
Automated single-cell NGS technical notes
Plate-based single-cell RNA-seq technical notes
View data on the SMART-Seq Single Cell Kit's superior sensitivity and reproducibility for single-cell and nuclei applications.
Get unparalleled sensitivity for single-cell, full-length total RNA-seq with strand-of-origin information.
Single-cell transcriptome studies: a powerful way to highlight subtle differences between cells that may be hidden in a population
The SMART-Seq v4 Ultra Low Input RNA Kit for Sequencing provides industry-leading performance for single-cell RNA-seq.
The SMART-Seq v4 3' DE Kit yields sequencing data that focuses on transcript 3' ends, providing a cost-effective solution for differential expression analysis.
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