The AVITI™ System for 10X Genomics single cell analysis

The AVITI™ System for 10X Genomics single cell analysis

The AVITI™ System for 10X Genomics single cell analysis.

Unmatched savings and throughput flexibility


Hi, I'm Isaku Tanida with Element Biosciences and today I'm going to go through a review of how the AVITI system combines with 10X Genomics technologies to create a powerful solution for single cell analysis. In particular, I'll cover how the AVITI flow cell and instrument design lines up well with the configuration of the Chromium chip and of course, the enormous sequencing costs and time savings that you'll achieve through the upcoming upgrades to our Avidity chemistry.

Hopefully you've already seen the recent announcement of Cloudbreak, an upcoming enhancement to our sequencing chemistry that enables it to significantly reduce sequencing times.

With Cloudbreak, typical single cell assays require less than 24 hours to run, combined with its lowest cost per read on a benchtop instrument AVITI is truly setting the standard for single cell sequencing. So over the next few slides, I'll show how running the AVITI with Cloudbreak chemistry would allow you to increase the frequency of experiments you complete per week, and that would generate an astounding level of savings in sequencing costs compared to SBS alternatives on an annual basis.

To quickly view in this figure. You see the 10X single cell workflow at a very high level when combined with the AVITI system to prepare for sequencing.

10X single cell libraries are generated as they normally would be, and resulting libraries are then circular, using a simple process at the bench for what's called the Adept Library workflow. You can easily understand the general idea that each of these steps are completed using kitted solutions.

But the next two slides, I'm going to first describe the Adept process in a little more detail so you can understand how it prepares a 10X single cell library for sequencing. And second, I'll describe how the configuration of the 10X Chromium chip aligns well with the very system such that little is wasted or time delayed by moving from library preparation to sequencing.

This figure shows the entire molecular workflow so you can visualize what and why each of the steps are necessary and how they happen. In the left panel, each set of the wells in the 10x chip is loaded with cells and barcoded beads to create gel beads in emulsion, with up to eight samples per chip, each sample well has thousands of cells. What follows is all standard 10X genomics processes that result in the expected linear DNA library pictured on the top right panel. These libraries all contain the critical P5 and P7 sequences that are needed as inputs for the Adept library compatibility workflow pictured beneath it.

The Adept workflow is a circularization process that requires no PCR amplification to achieve, which avoids the introduction of potential bias or error through this step. In this slide, you see a mocked up schedule of sequencing runs where single cell assays are run each of the first two days at 9 a.m. due to the 24 hour runtimes that can be achieved on DVD. For assays running up to 150 cycles. In this example on day one at 9 a.m. indicated as d1-9a, the schedule starts the equivalent of two sets of eight chromium samples on flow A and flow B simultaneously.

Each with different cell numbers per sample, a different read depth per sample set. On day two beneath it on the schedule, a single set of eight samples from a Chromium chip is split across the two flow cells. A and B, again, each flow cell running different cell numbers and read depths

On day three at 9 a.m, the schedule has an exome study on side A, but then in the middle of that exome run on the same day, a new round of single cell sequencing kicks off at 4 p.m. without disrupting the exome run on side A

In summary, unlike other benchtop space systems, the AVITI operates two independent flow cells versus one. And unlike other benchtop platforms, with multiple flow cells, the AVITI does not need the system to complete a flow cell run, before beginning another one.

Lastly, let's take a look at flexibility, throughput and cost versus alternative choices over the course of a year. In the previous slide, you can see how to generate large amounts of data daily on the AVITI. That frequency allows you to iterate on your experiments more often.

And you can see how doing this doesn't come at a penalty. In fact, on the average, you enjoy a tremendous cost savings compared to any of the other choices listed on this table. In this table, running four flow cells per week was used as a model. At that rate compared to the NextSeq 2000 this would generate over $500,000 in savings each year by comparison. The NextSeq2000 is also greatly hampered by the fact that it only operates a single flow cell which provides no flexibility per run. By comparison, the NovaSeq SP flow cell offers a faster runtime and the dual flow cell option but with zero savings compared to the NextSeq. You pay a premium for that added incremental level of speed and flexibility because you captured no savings improvement over the NextSeq. Skipping ahead to the S2 flow cell with its larger batch size, the S2 offers a 50% discount in cost compared to the SP, but it still falls behind the AVITI by $280,000 per year with a burdensome 4X batch size requirement. Even the S4 flow cell on the far right does not offer a break even costs versus the AVITI on an annual basis and requires you to wait for a full two week equivalent of sample batching.

From this table you can see the AVITI uniquely allows you to both pilot smaller batch size experiments on a daily basis at great cost savings while you also while also allowing you to scale output substantially by combining dual flow cell runs daily.

Another way to put it - you can generate 10 billion reads or the equivalent of an S4 flow cell by running five pairs of 24 hour runs on in the AVITI, while always maintaining the flexibility of what samples you run on each flow cell each day.

I hope this review was helpful to more clearly understand how the system can plug seamlessly into your ten single cell experiments, while offer you a cost savings and flexibility that other leading systems simply cannot match. Thank you again to our partners at 10X Genomics for their ongoing collaboration and support.

For more details on the performance of DVD with the 10X platform, please feel free to download our 10X datasets from the Element Biosciences website and look for upcoming news where we combine the AVITI system with 10X single cell assays for fixed tissues.

Thank you.