KAPA HyperChoice and KAPA HyperExplore

KAPA Target Enrichment Probes for custom regions

Hybridization or capture-based target enrichment enables researchers to enrich specific target regions for next-generation sequencing (NGS).

With its renowned probe design algorithm, Roche introduces KAPA Target Enrichment custom probes with the new HyperDesign online custom design tool for higher probe fidelity and improved target capture NGS. Our custom portfolio of KAPA HyperChoice and KAPA HyperExplore probes along with our other reagents and accessory products helps scientists enhance their target enrichment workflow and save on sequencing costs.

Sequencing data generated with the KAPA HyperCap Target Enrichment custom probes can be analyzed with Roche's cloud-based secondary analysis solution - the NAVIFY^® Mutation Caller - for accurate detection of variants.

Features and Benefits of KAPA Target Enrichment Probes

KAPA HyperChoice and KAPA HyperExplore Probes*:

Better by design, using Roche's renowned probe design and selection algorithms, enable access to challenging genomic regions
Seamless on-line generated designs in HyperDesign either with a few clicks or through an expert designer-assisted process
Stronger enrichment with high fidelity probes manufactured using KAPA HiFi DNA Polymerase
Consistent quality and performance with probe presence and concentration QC by NGS
High uniformity and low duplication for better sequencing efficiency with less optimization
Simplify your secondary data analysis with confident germline SNV and Indel calling using NAVIFY^® Mutation Caller

*KAPA HyperExplore Probes enable enrichment of up to 200 Mb of genomic regions for non-human genomes and for unconventional human designs.

Product highlights

High uniformity in coverage and low PCR duplicates with KAPA HyperChoice Probes

High uniformity in coverage and very low PCR duplicates
High % of reads on-target provide better target coverage
Higher sequencing efficiency with less iterations saves on cost and optimization time

The KAPA HyperChoice version of the SeqCap EZ Neurodegenerative design is delivering very low PCR duplicates and even better uniformity even by the first iteration, in contrast to the SeqCap EZ version that was empirically rebalanced. KAPA HyperChoice probes offer the same high % reads on target and better target coverage.

[Experimental details]: For KAPA HyperChoice Probes and SeqCap EZ Choice Probes, we followed the respective version of the KAPA HyperCap Workflow protocol starting from coriell control DNA. We have multiplexed 8 DNA libraries in each capture and we sequenced proportionally to the capture target size, at 2 x 101 bp on an MiSeq system.

Table 1: Performance of two KAPA HyperChoice designs

Design	Genes	Target size (capture)	HQ reads	System	% total duplicates	Fold 80 (uniformity)	% bases ≥30X
Neurodegenerative	> 98	335 Kb	1.75 M	NovaSeq 6000	2.78	1.38	99.83
Hereditary disease	> 4100	12.3 Mb	20.00 M	NovaSeq 6000	1.62	1.43	97.22

First iteration designs, showing very low PCR duplication with high uniformity (low Fold80 base penalty) and broad target coverage (% of bases covered at ≥30X) when run on a NovaSeq 6000 system. For both designs, we followed the KAPA HyperCap Workflow v3.0 starting from 100 ng of NA12891 DNA. Metrics are average of six replicates of single captures per design.

Research Use Only. Not for use in diagnostic procedures.
HYPERDESIGN, KAPA HYPERCHOICE, KAPA HYPEREXPLORE, HYPERCAPTURE, NAVIFY and KAPA are trademarks of Roche.
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