NGSgrade Oligos - The next Level | Eurofins Genomics

NGSgrade Oligos 2.0

Designed to minimize cross-contamination and maximize sequencing reliability, they are the perfect fit for any lab working with high-throughput genomics.

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NGSgrade Oligos 2.0 – The New Standard for NGS Precision

Modern NGS workflows rely on the precise pooling and indexing of hundreds to thousands of samples. Each sample is labelled with a unique index primer, and even minimal cross-contamination can result in misassigned reads, flawed data interpretation, and costly reruns. Low-quality oligos can also interfere with library prep or flow cell binding, ultimately reducing sequencing performance.

We have developed NGSgrade Oligos 2.0 – a new class of ultra-pure, rigorously validated oligos with certified cross-contamination rates as low as 0.01–0.05%. Designed for large-scale NGS setups and high-throughput multiplexing, they help you generate high-quality data, make confident decisions, and move your research forward.

Tested and validated in our dedicated in-house NGS lab

Used by leading research institutions & companies

Best on market cross-contamination rate

Built for Performance. Backed by Science.

Thousands of scientists already trust NGSgrade Oligos 2.0. Benefit from a proven technology that improves results, simplifies your workflow, and keeps your experiments on track.

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What's at stake

Unreliable Oligos Jeopardize Your data

In NGS workflows, even the smallest impurity or sequence error can compromise your entire run – wasting time, money, and samples.

If you're experiencing any of the following issues, you're not alone:

❌ Cross-contamination in index adapters

❌ Inconsistent or poor sequencing results

❌ Costly re-runs & wasted resources

❌ Uncertain oligo quality from standard vendors

❌ Time-consuming communication with Illumina support while troubleshooting unexplained project failures

OUR SOLUTION

Clean synthesis, better science:

We developed NGSgrade Oligos 2.0 to eliminate the typical pitfalls of traditional oligo production. The result: reliable primers that simply perform.

✔️Ultra-low cross-contamination: certified rates of just 0.01% to 0.05%

✔️ Validated in real NGS runs with 99.9986% correct read assignments

✔️ No HPLC needed, yet superior to HPLC-based purification

✔️ Compatible with all Illumina platforms

Key Benefits at a Glance

Why NGSgrade 2.0 outperforms standard oligos:

When designing indexed primers for multiplex sequencing, precision and purity are not optional – they’re essential.

✔️ Ultra-clean NGS-grade primers & adaptors

✔️ Reliable results in multiplexed sequencing

✔️ Faster turnaround time (TAT)

✔️ Industrial-grade quality available

✔️ Cost-efficient even for budget-sensitive labs

Not convinced yet? Call us!

We understand that ordering oligos for NGS can be complex and you have a specific question. That's why we introduced a 24/7 smart assistant.

Call us anytime at +49 30 219 244 13
Let´s discuss product options and specifications – in English or German.

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Product Specifications

Parameter DNA/RNA	Specifications
Product Type	Oligonucleotides for NGS - Available minimum quantities of 4 nmol, 10 nmol and 25 nmol
Formats	Unique Dual Index (UDI), Combinatorial (CDI), UMI, PCR primers, blocking oligos
Typical DNA sequence length /td>	from 15 - 120 bases
Cross-Contamination	Best on market values: Typically: 0.01 - 0.05%*
Platform Compatibility	Illumina (NovaSeq, NextSeq, MiSeq etc.)
Use Cases	Amplicon-Seq, RNA-Seq, WGS, microbiome studies
Purification	Proprietary method, no HPLC
Application Fields	Clinical research, diagnostics, agrigenomics
Yield options	Minimum 4 nmol, 10 nmol & 25 nmol
Oligo purity	Typically 70-80% for a UDI adapter primer with 72 bases, please see below for more information
Oligo modifications	PTO, 2’-Desoxyinosine, 2’-Desoxyuridine and 5’-Phosphate
Delivery time	From 8 working days depending on specifications
Reference	Currently used in Eurofins Genomics NGS production facility for UDI adaptor primers
Quality	Ensured by OD measurement and ESI-MS (electrospray ionization mass spectrometry); An online quality report, including the ESI-MS spectra, can be ordered
Solvents Options	Selectable solvents are Available minimum quantities of 4 nmol, 10 nmol and 25 nmolbidest water, TE buffer (10 mM Tris, 1 mM EDTA; pH=8) or Low EDTA Puffer (10 mM Tris, 0.1 mM EDTA pH = 8)

For delivery in tubes:

Oligos are supplied in 2ml screw cap tubes either lyophilized or in liquid form at the selected concentration

For delivery in plates:

Oligos are supplied in the selected 96well plate in liquid form at the defined concentration as standard other formats on request

Cross-Contamination Rate NGSgrade 2.0

The cross-contamination rate of 0.01 – 0.05% was determined by sequencing representative sets of Unique Dual Index (UDI) primer pairs using Illumina instruments at Eurofins Genomics’ European NGS sequencing facility. The rate given represents the typical total percentage of read pairs not matching the expected UDI combinations for a set of 96 UDI primer pairs. The corresponding Application Note shows a cross-contamination rate of 0.0014% for a set of 14 UDI primer pairs.

Please note that the total cross-contamination rate (percentage of incorrectly assigned read pairs) is influenced by the total amount of UDI primer pairs analysed in parallel. The more UDI primers are analysed, the higher the total cross-contamination can get, as more unexpected index combinations can be attributed.

In all cases, the actual cross-contamination of primers would be even lower as stated above. This is because the association of reads with other unexpected UDI primer pairs is a result of primer cross-contamination and index hopping during sequencing. Discriminating between these causes is not possible in this analysis setup.

Please note that Eurofins Genomics does not determine the cross-contamination rate for each individual set of NGS oligonucleotides produced and shipped.

	Total cross-contamination rate per UDI set (% total read pairs not matching the expected UDI combinations	Lowest measured cross-contamination per UDI combination	Reference
Eurofins Genomics NGSgrade Oligos 2.0	Typically 0.01 - 0.05%	0.00446%	Set of 96 UDI primer pairs
Eurofins Genomics NGSgrade Oligos 2.0	0.0014% (see application note)	0.00045%	Set of 14 UDI primer pairs
Other supplier	0.0208% (see application note)	0.00767%	Set of 14 UDI primer pairs

Purity and Coupling Rate NGSgrade 2.0

Product Data

Eurofins Genomics uses a new and proprietary synthesis device to produce high performance NGSgrade 2.0 oligonucleotides. This equipment enables best-in-class coupling efficiencies, resulting in a high percentage of non-truncated, full-length oligonucleotides.

Figure 1. Theoretical purities for NGSgrade 2.0 oligonucleotides. (A) Plot of theoretical purities for different lengths of oligos applying a coupling rate of 99.6%. This average coupling rate was determined based on a large and representative sample of data points. (B) Example IP-RP-HPLC-chromatogram for a UDI adapter primer of 72 nucleotides, recorded at λ = 260 nm. A purity of 74.0% was measured for the target product. Analytical IP-RP UHPLC was performed on a Vanquish Horizon Duo system from ThermoFisher Scientific.

NGSgrade Oligos 2.0 minimize cross-contamination (≤0.05%)

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Explore More

Deepen your understanding with curated resources:

Whether you need technical validation, inspiration, or application know-how – these links lead the way.

Application Note NGSgrade Oligos 2.0

Blog: Oligonucleotides for Diagnostics

Blog: How to do NGS 50% faster

Blog: Meet the team

Blog: Elevating NGS results with high purity primers

Frequently Asked Questions (FAQ)

Quick answers to common concerns: We know that time matters. Here are some of the most common questions we get – and how our NGSgrade Oligos 2.0 can help.

What makes NGSgrade Oligos 2.0 better than traditional HPLC-purified oligos?
Our proprietary purification technology provides cleaner oligos with lower cross-contamination, eliminating HPLC drawbacks while improving speed and consistency.
Are they compatible with Illumina sequencers?
Yes, NGSgrade Oligos 2.0 are optimized and validated for all Illumina platforms including NovaSeq, NextSeq, MiSeq and others
Can I use these for multiplexed runs?
Absolutely. With minimal index hopping and extremely high oligo purity, they are ideal for UDI and CDI multiplex applications.
Is custom synthesis available?
Yes. You can fully customize sequences, modifications, formats, and delivery quantities.
What if it doesn’t work?
We stand behind our product. If your results are not as expected, we’ll work with you through our dedicated customer support to investigate. This includes free replacement, reruns, or refund where applicable. Your success is our priority.
I’m not sure if I really need this level of purity.
Let’s find out together. Our experienced sales team can help you assess your application and see whether a simpler (and more cost-effective) oligo option might already meet your needs.
Is this the best product category on the market?
We believe so. NGSgrade Oligos 2.0 are the most sophisticated, validated and performance-optimized NGS oligos available today. We benchmarked them against major competitors – and they performed best. We even use them in our own sequencing services because they’re just that reliable.