What additional reagents are required when using CleanPlex for MGI NGS Panels with MGI sequencers?
Every CleanPlex® for MGI NGS Panel includes CleanPlex® for MGI Primer Pool(s) and a CleanPlex® Target Library Kit. To complete the library preparation workflow, the following are also required: – CleanPlex® for MGI Indexed PCR Primers (provided by Paragon Genomics) – CleanMag Magnetic Beads (provided by Paragon Genomics) – MGIEasy Circularization Kit (provided by MGI) The …
What are the differences between a ready-to-use panel and a custom panel?
Ready-to-use panels are initiated and designed by the Paragon Genomics R&D team that aim to provide the best solutions to specific research areas and/or clinical needs. The contents of these panels, as well as the performance, are internally validated to ensure that it passes our high standards. Custom panels are designed to satisfy the need …
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What read length should I use on MGI sequencers for CleanPlex for MGI libraries?
MGI sequencers support 2 x 100 bp and 2 x 150 bp read lengths. CleanPlex® for MGI Ready-to-Use Panels are designed for 2 x 150 bp read length. However, 2 x 100 bp can also be used. CleanPlex® for MGI Custom Panels can be designed to accommodate either 2 x 100 bp or 2 x 150 …
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What types of custom panels can you design?
We can design targeted panels for any target with a reference sequence. Some examples of target species include humans, animals, plants, insects, bacteria, and viruses. Our sample types include, but not limited to, cfDNA, FFPE samples, blood samples, and tissue samples. For bacterial panels, a minimum 7 amplicons is required. We can build 7 housekeeping …
Is there a minimum number of targets for a custom panel design?
Short answer is no. We have designed panels that contain as little as 2 amplicons and we can also offer single-amplicon options. However, it is recommended that a panel contains at least 10 amplicons per pool, to best utilize our multiplex capabilities, and to achieve the best sequencing results from our technology.
What is the upper amplicon count limit for a custom CleanPlex panel and a CleanPlex UMI panel?
We are yet to reach our limit of multiplexibility in our current portfolio of a wide range of panels. For standard CleanPlex technology, we have designed and delivered panels of up to 20,000 amplicons (approx. 400-genes) with great performance. Panels with higher amplicon targets may require more primer pools, which in tern require more DNA. …
What is the uniformity of a typical CleanPlex target enrichment library?
The uniformity ( ≥ 0.2X mean depth) of most CleanPlex libraries are greater than 95%. For example, the observed uniformity (at ≥ 0.2X mean depth) of the CleanPlex OncoZoom Panel is greater than 99% for both NA12878 (a genomic DNA standard) and Horizon Discovery’s HD780 (a cfDNA standard) (see plots below).
What are the AT and GC biases of CleanPlex target enrichment libraries?
The observed AT and GC dropouts are below 3% in CleanPlex® ready-to-use libraries. Below is a typical plot of Coverage Depth vs. GC Content of a library made with CleanPlex® OncoZoom Panel.