Conventional PCR screening for CRISPR edits can miss unintended off-target rearrangements. Indirect sequence capture using Xdrop facilitates the identification and elucidation of such rearrangements, including indels, around the CRISPR cut site. This application note shows this application using DNA from isogenic Alzheimer’s disease cell lines created from BIONi010-C.
Learn about how you can enrich for long DNA fragments on your region of interest using the Xdrop technology. Using a short Detection Sequence (around 150 bp) you can Indirectly Capture long fragments (more than 100 kb long), select and amplify them for sequencing on long or short read platforms.
Xdrop workflow encompasses two main processes: Indirect Sequence Capture using double emulsion droplets and Multiple displacement amplification in single emulsion droplets. You start with nanograms of high molecular weight DNA and end with micrograms of enriched long DNA fragments.
The Xdrop instrument makes it easy to enrich long DNA fragments for targeted long- and short-read sequencing. The first stage of the Xdrop enrichment process involves partitioning DNA into millions of double emulsion droplets using the Xdrop instrument. These droplets are highly stable and are suitable for PCR cycling and flow cytometry sorting. This simple protocol makes it possible for any laboratory to start enriching for their DNA target of choice.
The Xdrop instrument from Samplix makes it easy unbiased amplification of single DNA molecules. Each molecule is partitioned into separated single emulsion droplets, where the amplification occurs.
Multiple displacement amplification in droplets compared to bulk, provides a much uniform coverage, no inter-template chimeras and no preferential template amplification.
Application Note - Resolving complex structural variation with Xdrop: Detecting HPV18 integration sites in the human genome
Application Note - Resolving repetitive and GC-rich regions with Xdrop: Indirect Sequence Capture on Epstein Barr Virus
Application Note - Improved Whole Genome Amplification withXdrop: Even Coverage through unbiased, single-molecule amplification
Technical note - Xdrop vs. standard hybridization capture
Technical note - Duplex Xdrop enrichment: Enrichment of staggered long DNA fragments for complete deep sequencing of BRCA2
Long-read whole genome analysis of human single cells Joanna Hård, Jeff E Mold, Jesper Eisfeldt, Christian Tellgren-Roth, Susana Häggqvist, Ignas Bunikis, Orlando Contreras-Lopez, Chen-Shan Chin, Carl-Johan Rubin, Lars Feuk, Jakob Michaëlsson, Adam Ameur. 2021bioRxiv 2021.04.13.439527; doi: https://doi.org/10.1101/2021.04.13.439527
Alt-RPL36 downregulates the PI3K-AKT-mTOR signaling pathway by interacting with TMEM24 Xiongwen Cao, Alexandra Khitun, Yang Luo, Zhenkun Na, Thitima Phoodokmai, Khomkrit Sappakhaw, Elizabeth Olatunji, Chayasith Uttamapinant, Sarah A. Slavoff. Nat Commun 12, 508, 2021. doi: 10.1038/s41467-020-20841-6
Poster - Unbiased Amplification of Single Molecules Enables Even Coverage of Chromosomal DNA
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It is a priority for us, that current and new customers are supported in the best way possible.
We provide on-site hands-on training of lab personnel as part of our standard Xdrop installation service.
Here you will find the latest versions of Xdrop Software for downloading and updating your Xdrop instrument.
Check the Guide Xdrop instrument Software Update for instructions.
Xdrop Software Update. Version 1.3.0. Released 12th June 2020
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Samplix ApS is a biotechnology company. Our website includes information on our proprietary products and their applications in gene and cell screening, as well as our services offering. It's possible to create a customer account to use bioinformatics tools used for our workflows.