ThruPLEX Tag-seq Kit—Illumina NGS Library Preparation with Unique Molecular Tags
ThruPLEX Tag-seq combines molecular tags with ThruPLEX chemistry to construct molecularly tagged and sample-indexed Illumina NGS libraries. Each kit contains more than 16 million unique sequences used to tag individual DNA fragments prior to amplification, providing tracking of the fragments through the library preparation, target enrichment, and data analysis processes to detect low-frequency alleles or count individual fragments. The ThruPLEX chemistry is engineered and optimized to produce highly diverse libraries with reproducible sequencing performance from 1 to 50 ng of DNA. The entire three-step workflow takes place in a single tube or well in about 2 hours. No intermediate purification steps and no sample transfers are necessary, which prevents handling errors and loss of valuable samples. The ThruPLEX Tag-seq Kit includes all necessary reagents including indexes for multiplexing up to 96 samples. Once purified and quantified, the resulting library is ready for Illumina NGS instruments using standard Illumina sequencing reagents and protocols.
SMARTer DNA HT dual index kits
SMARTer DNA HT dual index kits are designed for use with SMARTer ThruPLEX and SMARTer PicoPLEX library preparation kits to construct libraries for multiplexed sequencing on Illumina sequencers. These kits contain indexed PCR primers carrying the Illumina Nextera XT v2 index sequences and offer a total of 384 dual indexes for multiplexing of up to 384 samples. The indexed PCR primers are supplied pre-dispensed in four different barcoded index plates, each of which contains one-fourth of the possible dual index combinations (Cat. # R400660−R400663; coming soon); or in a set of 24 individual tubes, each containing a different dual index combination (Cat. # R400664; available now). Each dual index tube (24N) contains sufficient volume for up to two uses. Each well of a dual index plate (96N Sets A–D) contains sufficient volume for a single use.
SMARTer DNA unique dual index kits
SMARTer DNA unique dual index kits are designed for use with SMARTer ThruPLEX and SMARTer PicoPLEX library preparation kits to construct libraries for multiplexed sequencing on Illumina sequencers. These kits contain indexed PCR primers carrying the “IDT for Illumina UD” index sequences and offer a total of 96 dual indexes for multiplexing of up to 96 samples. The indexed PCR primers are supplied pre-dispensed in four different sets of 24 individual tubes, each of which contains one-fourth of the possible dual index combinations (Cat. Nos. R400665−R400668). Each dual index tube (24U Sets A–D) contains sufficient volume for up to two uses.
To benefit from the information provided by the unique molecular tags (UMT) in ThruPLEX Tag-seq libraries, the sequencing data must be processed to group reads into amplification families and construct consensus reads. Two bioinformatics solutions designed specifically for processing data from ThruPLEX Tag-seq libraries are available:
Connor is an open-source bioinformatics tool hosted on GitHub (https://github.com/umich-brcf-bioinf/Connor) for processing sequencing data generated from ThruPLEX Tag-seq libraries. Connor takes an aligned BAM file as input, processes the UMT information and generates a processed BAM file containing consensus sequences.The output BAM file can be used with variant callers, such as FreeBayes,VarScan2, or GATK HaplotypeCaller.
Curio is a cloud-based bioinformatics platform available through Curio Genomics. Sequencing data from ThruPLEX Tag-seq libraries can be easily uploaded, processed, and visualized. The platform features an ultra-fast and user-friendly interface and a powerful alignment viewer. The platform is also equipped with modules for performing variant detection, analysis, and visualization. For more information, visit www.curiogenomics.com.