Summary Enrichment of genomic regions of interest is the most reliable and cost-effective way of performing multi-gene disease diagnostic and pharmacogenomic sequencing. The main challenge for clinical targeted next-generation sequencing methods is obtaining complete and uniform coverage of all target regions. Some popular methods for target enrichment rely on lengthy and inefficient hybrid capture or multiplexed PCR techniques, resulting in lower coverage and more off target reads.

To address these challenges, WaferGen has developed the high-density SmartChip TE System. One SmartChip TE panel supports conducting hundreds to thousands of parallel, singleplex PCR reactions to efficiently enrich desired target regions in less than 3 hours. Since amplification of each target region occurs in an individual PCR reaction, the method is not susceptible to interference due to multiplexing. Following amplification, all PCR products from an individual sample are collected as amplicon pools in a single step and are ready for standard library preparation protocols. This format also enables quick and easy modifications to panel content during development and optimization.

Advantages

SmartChip TE Workflow

Singleplex PCR Eliminate multiplexing interferences and cross-reactivity, allows for more uniform and repeatable amplification of target regions

Excellent sensitivity % Base covered at 1x >99% and routine coverage at 100x >98%

Unparalleled uniformity >98% at >10% of the mean

Flexible design Add or subtract individual assays without re-optimization of entire panel

Low cost per sample As low as $99 per sample

SmartChip TE System is your Smart choice in Target Enrichment

ADVANCING THE SCIENCE OF TOMORROW TODAY.

SmartChip TE System

Design CustomPrimer Panels

Dispense Sample(s) Perform Singleplex PCR

Pool Amplicons Prepare Library and Sequence

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For Research Use Only. Not intended for any animal or human therapeutic or diagnostic use. © Copyright 2013, WaferGen Biosystems. All rights reserved. Information in this document is subject to change without notice. WaferGen Biosystems assumes no responsibility for any errors that may appear in this document. WaferGen and WaferGen Biosystems (Design), WaferGen Biosystems are trademarks of WaferGen Biosystems or its subsidiaries in the U.S. and/or certain other countries. All other trademarks are the sole property of their respective owners. MKT-027

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Ordering Information SmartChip TE System Components

Product Catalog Number

SmartChip TE System 420-000019

SmartChip TE Panel 440-000043

Extended Warranty for SmartChip TE System 420-000023

SmartChip TE Nanodispenser Automated vacuum station to load a single sample mixture into SmartChips TE containing PCR primers

22cm x 19cm x 19cm 100-230V, 2.0/1.0A (50/60Hz)

96 well thermocycler with a SmartChip TE Adapter that can run one or two SmartChips TE

35cm x 21cm x 18 cm 100-230V, 4.0/2.0A (50/60Hz)

Uniformity (coverage at 10% of mean) >98%

% Bases covered at 1x 99.2%

% Bases covered at 10x 98.9%

% Bases covered at 20x 98.8%

% Bases covered at 100x 98.2%

Figure 1. Performance data for a typical SmartChip TE Panel (140 kb target region) targeting all exonic regions in a 17 gene set. High design rates and % bases on target ensure specific amplifcation necessary for efficient enrichment. These panels result in high coverage rates up to 100x and very high uniformity of coverage (> 98%) at 10% of mean coverage.

Figure 2. Uniformity at 0.1x, 0.2x and 0.5x of the mean coverage is shown for a 140kb target region. Data is plotted for 20 samples on a single MiSeq run and is typical of high uniformity and repeatability of uniformity from sample to sample. For all samples, >95% of bases are covered at 0.1x and 0.2x of the mean coverage (green and orange bars, respectively) and >85% of bases are covered at 0.5x of the mean coverage (purple bars).

Ideally suited for your CLIA-certified or clinical research laboratoryTarget enrichment methods providing complete coverage, uniform read depth across targets, and a simple and reproducible workflow are required for successful implementation in a clinical setting. Existing multiplex PCR-based methods and hybrid capture are often inadequate in these areas. Now, clinical investigators can utilize the SmartChip TE system to obtain the most complete and uniform coverage among target enrichment technologies. Unprecedented enrichment quality is achieved with flexibility of running up to 2500 unique singleplex reactions on a single SmartChip TE.

High Coverage Uniformity and Specificity

Sample-to-Sample Reproducibility

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