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seqWell Technology is Accelerating
NGS Research for Our Customers

Georgia Giannoukos, Ph.D.

Director, Next Generation Sequencing, Editas Medicine

The first proof of concept experiment was with the seqWell enzyme in the storage buffer, and we did multiple dilutions to see which one worked the best. We took the best dilutions, made UDiTaS libraries, and sequenced them. The seqWell 1:2 dilution enzyme performed the best. We had the similar recounts, the median size libraries were the same, and we had greater than 85% of the reads aligning to the target. The (Tagify) batches are consistent, and they provide similar tagmentation profiles and editing results. The reactions can be scaled from 96 to 384 wells, and we’ve been able to process thousands of reactions over one year. We were able to see very good reproducibility across batches (with Tagify).

Lacy Simons

Acting Lab Manager, Hultquist Lab, & Lab Director, Center for Pathogen Genomics and Microbial Evolution at Northwestern University

ExpressPlex makes everything so much easier for us. It combined three or four steps into one, which is unique to seqWell products. That made our library prep so much faster, and the quality control was significantly better compared to other kits. Now the risk of error has significantly decreased for our technicians. My lab does a lot of COVID sequencing, but we also cover RSV, influenza, numerous bacteria and yeast, and the most recent monkeypox outbreak. We’ve used ExpressPlex for all these applications and never had a problem.

Mohammad Faghihi. M.D., Ph.D.

Sr. Vice President, Lab Operations, Galatea Bio

Unlike full-day involved protocols from other companies, the simple seqWell workflow allows more throughput, even without using expensive robots. seqWell’s workflow also increases accuracy by providing unique sample indexing at the beginning without increased chance of index hopping. The number of failed samples is much lower, saving time, money, and potential mislabelling caused by repeating experiments. We were seeing a 75% success rate previously, but observed huge improvements. We now have a 95-99% success rate with seqWell.

Corbin Dirkx

Operations Manager, University of Minnesota Genomics Center

For traditional library prep methods, we had to individually quantify every single sample, then normalize them, then pull them proportionally. That’s significant when you’re talking about five, six, seven thousand samples. purePlex’s autonormalization eliminates the need for a lot of that. It’s more streamlined because basically all we need to do is roughly standardize the input instead of the libraries at the end. seqWell is also constantly innovating. Even over the course of using purePlex, they’ve come out with new iterations, and the unique barcode set has been expanded. So, when you think about the bleeding edge of these technologies and these applications, we were on it.

Henry Chan, Ph.D.

Synthetic Biology Lead, Octant Bio

ExpressPlex is literally faster than Sanger. This changes everything for us. Basically, taking a two-day process to one day dramatically shortens time to data. Now it’s just one-step transfer and then we put it onto the library. We can actually democratize this, and people can run it. This one-day shortening of the processes gives us two turns of the crank on any given experiment rather than one. This is huge.

Frank Middleton, Ph.D.

Professor, Director, SUNY Molecular Analysis Core, State University of New York (SUNY) Upstate Medical University

In order to adopt such a scaled-up effort to track the emergence and divergence of SARS-CoV-2 in New York state, we had to identify the best enrichment PCR protocol, and so we did a lot of searching. We looked and found the ARTIC v3 protocol using the ExpressPlex method and that seemed highly attractive to us because of the scalability. It actually enabled us to implement low, moderate, and even higher throughput as needed. It wouldn’t have been possible to do without the one-step ExpressPlex workflow.

Charli Gruen

Postbaccalaureate Research Fellow, Laboratory of Cancer Biology and Genetics National Cancer Institute, NIH

The seqWell technology has improved efficiency by significantly cutting down operation time on the QC and dilution of cDNA, in addition to pooling of the samples at an earlier timepoint in the process. The plexWell Rapid Single Cell kit has made preparation of high-quality single-cell libraries feasible for regular lab, instead of a formidable task using the alternative methods. Our experience has led to the implementation of the plexWell Single Cell method at Core Facility, expanding their capabilities to support analysis at single cell resolution in our institute.

Areta Buness

Research Associate II, Strain Engineering, Novome Biotechnologies

The integrated auto-normalization in the plexWell kit allows us to treat 96 samples as 1—one Qubit measurement to get the average concentration of the input plate, one tube to process in the library prep, and one library pool to normalize and load onto the iSeq. This is a huge advantage of the plexWell kit, as it eliminates both the need for individual input DNA purification and individual sample normalization.

Daniel Oliveria

Mini-Core Technician, University of California, Los Angeles

Key benefits of using plexWell LP 384 are the timesaving library prep and the easy clean-ups compared to other methods. Being able to create a library in two days allows us to amp up the number of samples we are processing.

Erin Toffelmier, Ph.D.

Associate Director, California Conservation Genomics Project, University of California, Los Angeles

We have samples of many different species, such as damselflies, bobcats, and rockfish. The plexWell LP 384 kit is flexible across most species we are working with and with a low input amount which is important for threatened species.

Jacquelyn Wilson

Project Manager

I appreciate the collaborative spirit that’s embedded into the corporate culture here. That has been conducive to my personal and professional growth. I’ve been with seqWell since the start of my scientific career, working up the ranks to project manager. In my current role I get to work with different teams throughout the company, which has taught me how to identify and leverage the strengths of individuals then maximize the benefit for the sake of our organization. My colleagues, also known as “seqWellians”, are my favorite part of this job. Everyone is extremely bright, friendly, and positive. We all share a common goal of not only being successful but of garnering that success together as a team. That makes my job more seamless and enjoyable.

Ken Tenan

Field Applications Specialist

Before seqWell, I spent most of my time manually preparing hundreds of libraries at the lab bench. Now, not only do I have a more balanced schedule, but I also get to make life easier for customers with experiences like my own. I appreciate that the executive team at seqWell is transparent in their goals and are happy to talk with anyone, regardless of their position. On top of that, when my mom was terminally diagnosed, my manager and colleagues encouraged me to take all the time I needed to take care of her, and myself. Everyone was supportive through those uncertain months, which meant the world to me. That’s what you get when you work at seqWell; People are more members of a team than coworkers. We care for each other, and I have no doubt this culture will persist even as the company continues to grow.

ExpressPlex: A 90-Minute Library Prep Method

30 Minute Hands-On Time (for 96 Samples)

Construct multiplexed, balanced library pools in 90 minutes, suitable for same-day sequencing
Requires minimal liquid handling steps
Auto-normalizes insert size and read count
One pool cleanup

Powerful High-Throughput Sequencing

Unique transposase-based tagging method

ExpressPlex™ library preparation technology utilizes a unique, sequential, transposase-based tagging method to generate auto-normalized NGS libraries in true multiplexed fashion. This approach is particularly powerful in high-throughput sequencing of samples with relatively low sequence complexity (e.g., Plasmids, and small genomes), where it is challenging to balance library construction capacity and cost with available sequencing capacity.

A Unique Approach to Library Prep

Built-in Normalization = More Cost-effective Sequencing

The cost-effective, streamlined, and highly scalable workflow yields pools of normalized libraries with unique barcode combinations. Uniform read distributions and high data quality further reduces overall sequencing costs.

Only 3 pipette transfers
Flexible batch sizes, combinatorial indexing
Built-in read count and insert size normalization
Designed for support of automation and flexible reaction volumes

ExpressPlex is the latest of seqWell’s family of products, including:

Tn5 Transposase

The technology developed by seqWell permits scientists to create personalized reagents by designing and synthesizing them according to their research objectives. This feature allows scientists to optimize a reagent for a particular application, such as including Tn5 transposase and a unique payload suited to their research goals.

plexWell™ 96

plexWell™ 96 uses SeqWell’s proprietary plexWell™ technology, which involves tagging individual DNA molecules with unique barcodes that enable accurate and efficient sequencing of large numbers of samples in parallel.

plexWell™ 384

plexWell™ 384 supports a wide range of sequencing applications, including whole-genome sequencing, exome sequencing, targeted sequencing, and single-cell sequencing

Perfect for High-throughput Plasmid and Amplicon sequencing

High Success Rates of Plasmid Assembly

Given the robust read balance and lower number of reads required to generate correct assemblies, ExpressPlex users can multiplex higher numbers of samples on a single Illumina run or utilize a lower capacity flow cell, thereby reducing the cost of sequencing per plasmid.

Libraries were prepared as described above, sequenced (MiSeq Nano; 2 x150) and de novo assembled using seqWell’s SNAP plasmid assembly pipeline. The sequencing run was downsampled to either 1,000 or 500 average read pairs per sample to identify error-free, circular plasmid assemblies. Even at only 500 average read pairs all ExpressPlex samples generated correct circularized assemblies. At the same number of reads, however, Nextera XT (full and ¼ reactions) failed 8-10% of assembly attempts.

Confident Amplicon Sequencing

ExpressPlex’s workflow and 10bp barcodes provide >99% on-target rates.

20 uniquely mapping amplicons were generated from lambda DNA. The amplicons were used combinatorial as input into the ExpressPlex library prep such that each sample is comprised of 2 lambda amplicons and each well contains a unique amplicon combination. Sample input was maintained at 16 ng and 15 cycles of PCR were used during the library preparation. Following sequencing, demultiplexed reads were mapped to the lambda genome and marked as on-target (expected amplicon combination) or off-target for each well. All wells have an on-target rate >99% (above figure) with an average on-target rate of 99.XX%. Amplicon sequencing with EP enables efficient preparation of up to 1536 amplicons multiplexed on a single lane, enabling high-throughput applications without fear of index-hopping, or PCR chimeras.

ExpressPlex is also ideal for:

Labs transitioning away from Sanger method due to need to process at larger volumes

Viral detection/sequencing

Applications that focus on speed and volume vs. high-depth reads

Learn more about how ExpressPlex technology can maximize your sequencing efforts.

Benefits of ExpressPlex

ExpressPlex technology is an ultrafast, low touch, automatable library prep

Extremely simple kit (only 3 kit components)

Low touch single reaction for library generation and amplification

Flexible batch sizes (8 – 1536 samples)

Easiest library prep workflow (One-and-done)

Automation-friendly

Tunable library prep platform for a broad range of applications

Save over 50% of time by using ExpressPlex. Check out the complete workflow

Less Plastics – Help Save the Environment

Thanks to the highly efficient ExpressPlex workflow, you can use almost 80% less pipette tips and plastics to prepare your libraries.**

**calculations based on 96 samples prepared, comparing ExpressPlex to Nextera XT.

Complete the form to be contacted by a seqWell representative.

ExpressPlex = Better Performance

ExpressPlex demonstrates significantly higher levels of normalization compared to competitors, enabling a simplified workflow where individual normalization is no longer required to achieve more consistent read-depths across samples.

Libraries were prepared from three different reference plasmids of varying sizes across a 10-fold input range at full reaction volume for ExpressPlex (16 µL) and Nextera XT (50 µL), as well as at ¼ miniaturized reaction volume for Nextera XT.

For each method, inputs ranged from 4-40ng for ExpressPlex (standard input is 16ng) and 0.4 – 4ng for Nextera XT (standard input is 1ng). Inputs were scaled appropriately for 1/4 reactions.

Auto-Normalization of Insert Size

ExpressPlex generates highly consistent library insert sizes over a broad range of DNA inputs

Libraries from pUC19 plasmid DNA were simultaneously prepared at 3 different input amounts (n=8 each input amount). ExpressPlex demonstrated greater consistency in average insert size across a 10-fold range.

Specifications

Specs	Description
Primary Applications*	Plasmid and amplicon sequencing
Sample Types*	Plasmids, amplicons > 350bp
Reactions per Kit	96 reactions 384 (4 different sets available)
DNA Input Recommended	8 – 40ng
Total Library Prep Time (hands-on time)	90 min (30 min hands-on)
Indexing Method	Combinatorial Dual Indexing
Number of Unique Index Combinations	1,536
Supported Paired Reads (Clusters) per Sample	< 4 million (validated to date)
Output Fragment Range**	400 – 1,200bp
Number of PCR Cycles	12 cycles for plasmids 15 cycles for amplicons
Sequencer Compatibility	All Illumina sequencing platforms; Use with Element Biosciences AVITI™ or other sequencing platforms is possible with conversion kits for Illumina libraries

*Other sample types are compatible. Contact seqWell’s application group for guidance.

**Fragment size will depend on magnetic bead cleanup ratios used.

ExpressPlex Library Prep Kit Includes:

Indexing Reaction Plate(s)

Ready Reaction Mix Plate(s)

MAGwise Paramagnetic Beads

Users do not need to supply polymerase, primers, or barcodes. These are already pre-mixed into the reagents supplied.

Have questions? Complete the form to be contacted by a seqWell representative. We’ll be happy to assist!

seqWell Technology is Accelerating NGS Research for Our Customers