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Technical notes 3' mRNA libraries from single cells

SMART-Seq mRNA 3' DE—simplified high-performance single-cell differential expression analysis

Next-Gen Sequencing

NOTE: We have updated the name of this product from SMART-Seq v4 3’ DE Kit to SMART-Seq mRNA 3’ DE in alignment with our new naming convention. This is solely a name change and does not involve any modifications to the components, protocol, or manufacturing process.

Single-cell transcriptomics is important in understanding how gene expression of individual cells varies within cell populations. We have developed an end-capture method that focuses the majority of sequencing data on the 3' ends of mRNA transcripts from single cells. This enables you to collect high quality data with fewer sequencing reads. This kit incorporates features from the industry-leading SMART-Seq mRNA, including SMART (Switching Mechanism at 5' End of RNA Template) and locked nucleic acid (LNA) technology.

NOTE: We have updated the name of this product from SMART-Seq v4 3’ DE Kit to SMART-Seq mRNA 3’ DE in alignment with our new naming convention. This is solely a name change and does not involve any modifications to the components, protocol, or manufacturing process.

Single-cell transcriptomics is important in understanding how gene expression of individual cells varies within cell populations. We have developed an end-capture method that focuses the majority of sequencing data on the 3' ends of mRNA transcripts from single cells. This enables you to collect high quality data with fewer sequencing reads. This kit incorporates features from the industry-leading SMART-Seq mRNA, including SMART (Switching Mechanism at 5' End of RNA Template) and locked nucleic acid (LNA) technology.

In addition to focusing reads on the 3' end of mRNA transcripts, this kit also includes in-line indexes that serve as cell barcodes on Read 2 that enable pooling of up to 12 samples per Illumina index pair, resulting in up to 1,152 samples per sequencing lane. This pooling further reduces the time and costs of discovery. This kit takes a convenient input volume of 1–10.5 µl and relies on the Illumina Nextera® XT DNA Library Preparation Kit. This kit has been designed and validated to prepare cDNA samples and subsequent sequencing libraries for the following Illumina sequencing platforms: HiSeq®, NextSeq®, MiSeq®, and MiniSeq™.

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Cat. # Product Size Price License Quantity Details
635040 SMART-Seq® mRNA 3’ DE 96 Rxns USD $4081.00

SMART-Seq mRNA 3′ DE includes the components to generate high-quality cDNA from 1–100 intact cells or ultralow amounts of total RNA. The cDNA generated from each reaction has a cell barcode that allows for pooling downstream. This kit uses the SMART-Seq mRNA technology with locked nucleic acids (LNA) for excellent sensitivity and reproducibility. Additionally, this kit includes a complete set of index primers for downstream library preparation. By focusing the majority of cDNA fragments on the 3′ end of mRNA transcripts, this kit enables differential expression (DE) analysis with fewer reads, reducing the cost of discovery. When combined with the Illumina Nextera® XT DNA Library Preparation Kit, this kit results in a library ready for sequencing on Illumina platforms.

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
635041 SMART-Seq® mRNA 3' DE 192 Rxns Inquire for Quotation *

SMART-Seq mRNA 3′ DE includes the components to generate high-quality cDNA from 1–100 intact cells or ultralow amounts of total RNA. The cDNA generated from each reaction has a cell barcode that allows for pooling downstream. This kit uses the SMART-Seq mRNA technology with locked nucleic acids (LNA) for excellent sensitivity and reproducibility. Additionally, this kit includes a complete set of index primers for downstream library preparation. By focusing the majority of cDNA fragments on the 3′ end of mRNA transcripts, this kit enables differential expression (DE) analysis with fewer reads, reducing the cost of discovery. When combined with the Illumina Nextera® XT DNA Library Preparation Kit, this kit results in a library ready for sequencing on Illumina platforms.

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

*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

  • Improved SMART-technology-based chemistry—SMART-Seq v4 oligo with LNA technology plus improved formulations lead to better performance (high sensitivity, better reproducibility, and more GC-rich genes detected).
  • End-capture protocol—the majority of reads are focused on the 3' end of samples while maintaining excellent sensitivity, reducing the number of reads required for differential expression analysis. More information can be found in this tech note.
  • Pooling of up to 12 samples per Illumina index pair—in-line indexes serve as cell barcodes and enable pooling of up to 12 samples per Illumina index pair (1,152 samples per sequencing lane), further reducing time and costs.

More Information

Applications

  • cDNA synthesis for end-capture mRNA-seq for differential expression analysis of single cells

Interested in more data and FAQs about this product? Visit the NGS Learning Center.

If you are looking for software to demultiplex your sequencing data generated with this kit, please visit the SMART-Seq DE3 Demultiplexer webpage.

Additional product information

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

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