Genome editing tools like transcription activator-like effector nucleases (TALENs) and zinc finger nucleases (ZFNs) revolutionized biomedical research. However, since the early 2010’s, no gene editing tool has been as powerful as CRISPR-Cas9.
The potential for therapeutic applications of gene editing cannot be understated, but further research is needed to ensure the intended edits are precisely implemented.
Creating proper QC methods are critical to this effort, and transposase-based approaches, with solutions such as seqWell’s Tagify UMI reagents, offer promise. Incorporating Tagify UMIs in conjunction with methods like UDiTaS™, can help researchers create QC benchmarks that will ultimately promote the development of safer and more effective gene editing.
“We use seqWell’s custom Tagify reagent for our UDiTaS process. The batches are consistent and 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.”
– Georgia Giannoukos, Ph.D., Director of Next Generation Sequencing, Editas Medicine
In this webinar, Dr. Giannoukos highlighted how her team combined a custom Tagify reagent with their UDiTaS method to measure large deletions and inversions at the CEP290 editing site.
She also incorporated data demonstrating reproducibility of different Tagify batches. This webinar was transcribed into a blog if you prefer to read along.
Genome editing with technologies like CRISPR-Cas9 can be accompanied by off-target mutagenesis that are critical to measure and characterize. In general, it is effort-intensive, slow, and bias-prone to generate libraries of genomic DNA by fragmentation, size selection, end-repair and ligation prior to PCR. Library amplification is often followed by inefficient hybridization-based enrichment of sequences of interest to reduce sequencing cost.
In this poster, we describe the use of Tagify™ UMI Tn5 transposase-based reagents to circumvent these limitations.
With the incorporation of UMIs, Tagify is a powerful downstream QC method. It allows users to quantify gene editing efficiency and fidelity at the on-target molecular level for an accurate assessment of outcomes after the editing process has taken place.
Parallelly, the ExpressPlex™ Library Prep Kit is an innovative solution that can be used as an upstream QC method. ExpressPlex allows users to verify the DNA sequence of the reagents used in their labs prior to the gene editing process.
Using ExpressPlex upstream and Tagify downstream allows users to effectively sandwich their gene editing between two reliable QC points. This can also be helpful if the QC activities are being performed in different labs within the same company, as it enables a more streamlined workflow and reproducible results.
Learn more about this powerful combination with this blog.
“We’ve been asking for this. What’s great about Tagify is that it allows you to look at a specific place in the gene, and adapter concentration is taken care of. This system is really important because it provides us this opportunity to assess the consequences of gene editing in a semi-unbiased way. It shortens our process, makes it much more controlled, and lessens the amount of reagents we need to use.”
– Athea Vichas, Ph.D., Senior Principal Scientist of Gene Editing Analytical Development, Bristol Myers Squibb
In addition to our Tagify UMI reagents, we also offer custom-loaded Tn5 transposase with your specific adapter designs – formulated with seqWell’s rigorous quality standards.
Learn more here or watch the webinar below.
Enabling Sequencing Applications with Improved Transposase-Based Solutions
The capacity and speed of modern DNA sequencing platforms has allowed sequencing to become an integral component of biomedical research and development pipelines. One key need emerging from this capability is for library tools that match sequencer technology with comparable workflow speed, throughput and efficiency.
In this video, we explore how transposase-based library technologies are well-suited for a number of challenging high-throughput workflows, and how innovations such as purePlex, ExpressPlex and Tagify are accelerating critical sequencing-based applications.