The following optional pre-conference workshop will be hosted by the conference sponsor Samplix and will take place before the EMBL Conference: Cancer Genomics
Xdrop™ - Targeted Sequencing enabled into the Dark and Unknown
|Date: Monday, 4 November 2019, from 11:30 to 12:30|
Venue: Helix Seminar Room A, EMBL Advanced Training Centre
Peter Mouritzen, Ph.D.
Targeted sequencing data will never be better than the input material generated during the targeted enrichment process! While this may seem trivial, very few targeted enrichment technologies allow the user to maintain the integrity and quality of the DNA during enrichment. This results in both false positives and false negative results and can significantly impact conclusions. The Xdrop™ technology, a novel automated microfluidics-based targeted enrichment system, enables fast targeted enrichment while maintaining the quality of the DNA and thus makes it possible to avoid the artefacts introduced with other enrichment technologies. Here we show the Xdrop™ system being employed to sequence integrated viruses and their surrounding unknown chromosomal sequence, sequence long GC repeats, and we show phasing of mutations from sub-nanograms of DNA. Regions of 40-70 kb are enriched and sequenced using Illumina, PacBio, and Oxford Nanopore sequencing at high coverage. Apart from the Xdrop™ reagents, just 0.2-10 ng of input DNA and two adjacent 20-25 bp primers are used for the enrichment of a chromosomal region and it is therefore fast and easy to set up for a new region. The primers are located in the central part of the enriched region which means that partially unknown regions can also be enriched using the system making it relevant for regions with structural variation, CRISPR gene editing, gap closing, variable viruses or bacteria, pseudogenes etc. We also show that the Xdrop™ system can be used for general, unbiased isothermal amplification of small amounts of samples of DNA for any type of downstream sequencing.
All conference participants will receive an email with a registration link.
Participation in the workshop is first come - first served.