NEXTflex® Cell Free DNA-Seq Library Prep Kits for Ion Torrent Sequencing

Ideal for sequencing of cfDNA and ctDNA on an Ion Torrent-based sequencer

Catalog# Product Name Quantity US List Price
NOVA-4002-01 NEXTflex™ Cell Free DNA-Seq Kit - Ion Torrent Compatible
8 rxns $181 Buy Now
NOVA-4002-02 NEXTflex® Cell Free DNA-Seq Kit - Ion Torrent Compatible 48 rxns $860 Buy Now
NOVA-401001 NEXTflex® DNA Barcodes - Ion Torrent Compatible - 8
48 rxns $401 Buy Now
NOVA-401002 NEXTflex® DNA Barcodes - Ion Torrent Compatible - 16
96 rxns $802 Buy Now
NOVA-401003 NEXTflex® DNA Barcodes - Ion Torrent Compatible - 32
192 rxns $1,605 Buy Now
NOVA-401004 NEXTflex® DNA Barcodes - Ion Torrent Compatible - 64
384 rxns $3,210 Buy Now
NOVA-3825-01 NextPrep-Mag™ cfDNA Isolation Kit (< 1 mL - 3 mL) 16 - 50 isolations $421 Buy Now
NOVA-3825-03 NextPrep-Mag™ cfDNA Isolation Kit (3 mL - 5 mL) 50 isolations $773 Buy Now

NEXTflex Cell Free DNA-Seq Kit for Ion Proton & Ion PGM Kit Box 

  • Only 1 - 5 ng of cell free DNA input required
  • Enhanced Adapter Ligation Technology offers larger number of unique sequencing reads
  • Flexible barcode options– Kits contain 8, 16, 32, or 64 unique barcodes
  • Simplified workflow with 96-well plate compatible volumes
  • Ideal for Ion Torrent DNA-Seq library prep from cell free fluids


The Ion Torrent compatible NEXTflex™ Cell Free DNA Sequencing Kit is designed to prepare genomic DNA-Seq NGS libraries from 1 - 5 ng of cell free DNA for sequencing using the, Ion S5, Ion S5 XL, Ion Torrent PGM, and Ion Proton sequencing platforms.

The NEXTflex Cell Free DNA Sequencing Kit simplifies workflow by using master mixed reagents and magnetic bead based cleanup, reducing pipetting and eliminating time-consuming steps in library preparation. In addition, the availability of up to 64 unique adapter barcodes enables high-throughput applications.

There are five main steps involved in preparing genomic DNA for Ion Torrent sequencing: DNA extraction, DNA end repair, size selection (optional), adapter ligation and PCR amplification. This kit contains the necessary material to prepare the user’s purified DNA for emulsion PCR and subsequent sequencing. We recommend using the NextPrep-Mag™ cfDNA Isolation Kit for isolation of circulating DNA from blood plasma prior to library prep.

Cell free DNA has become a powerful marker in clinical applications due to the unique origin of DNA molecules present in plasma. Detection of fetal DNA from maternal plasma has proven to be a viable, non-invasive option to identify a variety of fetal traits including: sex determination, sex chromosome-linked disorders and aneuploidy events. Circulating tumor DNA extracted from plasma of symptomatic patients can be used as a non-invasive resource for diagnosis, prognosis, treatment decisions, and follow-up monitoring of cancer patients.

Cell Free DNA-Seq Multiplexing Options

The NEXTflex™ DNA Barcodes - Ion Torrent Compatible are adapters containing indexed sequences that offer an improved multiplexing workflow and flexible setup. This format enables multiplexing of up to 64 samples. The NEXTflex DNA Barcodes are available in sets of 8, 16, 32, and 64 unique adapters. The ability to pool samples in an efficient way significantly decreases hands-on time while providing robust data quality.

Kit Specs

The Ion Torrent compatible NEXTflex Cell Free DNA-Seq Library Prep Kits contain the reagents to prepare 8 or 48 genomic DNA samples for IOn S5, Ion S5 XL, Ion Torrent PGM and Ion Proton-compatible next-generation sequencing. The shelf life of all reagents is 12 months when stored properly at -20°C. Ships on dry ice.

This kit is for research use only.


NEXTflex Cell Free DNA-Seq Protocol for Ion Torrent Sequencing

NEXTflex Cell Free DNA-Seq Ion Proton & PGM Flow Chart

Kit Contents

NEXTflex™ End Repair Buffer Mix 
NEXTflex™ End Repair Enzyme Mix 
NEXTflex™ Ligation Mix
NEXTflex™ Adapter Mix (6.25 µM)
NEXTflex™ Primer Mix (12.5 µM)
NEXTflex™ 5X PCR Master Mix
Nuclease-free Water
Resuspension Buffer

Required Materials not Provided

1 - 5 ng of cell free DNA in up to 40 µL nuclease-free water.
NEXTflex™ DNA Barcodes for Ion PGM™ and Ion Proton™ – 8 / 16 / 32 / 64 (Cat # 4010-01, 4010-02, 4010-03, 4010-04)
Ethanol 80% (room temperature)
96 well PCR Plate Non-skirted (Phenix Research, Cat # MPS-499) / or / similar 
96 well Library Storage and Pooling Plate (Fisher Scientific, Cat # AB-0765) / or / similar
Adhesive PCR Plate Seal (BioRad, Cat # MSB1001)
Agencourt AMPure XP 5 mL (Beckman Coulter Genomics, Cat # A63880)
Magnetic Stand -96 (Ambion, Cat # AM10027) or similar
2, 10, 20, 200 and 1000 µL pipettes or multichannel pipettes
Nuclease-free barrier pipette tips
1.5 mL nuclease-free microcentrifuge tubes