ERP024468

   Project:  ERP024468
   Organism:  Homo sapiens
   Study Title:  Comparison of seven single cell Whole Genome Amplification commercial kits using targeted sequencing
   Center Name:  European Bioinformatics Institute;Department of Computer Science and Applied Mathematics;Weizmann Institute of Science
   Description:  Advances in biochemical technologies have led to a boost in the field of single cell genomics. Observation of the genome at a single cell resolution is currently achieved by pre-amplification using whole genome amplification (WGA) techniques that differ by their biochemical aspects and as a result by biased amplification of the original molecule. Several comparisons between commercially available single cell dedicated WGA kits (scWGA) were performed, however, these comparisons are costly, were only performed on selected scWGA kit and more notably, are limited by the number of analyzed cells, making them limited for reproducibility analysis. We benchmarked an economical assay to compare all commercially available scWGA kits that is based on targeted sequencing of thousands of genomic regions, including highly mutable genomic regions (microsatellites), from a large cohort of human single cells (125 cells in total). Using this approach, we could analyze the genome coverage, the reproducibility of genome coverage and the error rate of each kit. Our experimental design provides an affordable and reliable comparative assay that simulates a real single cell experiment. Results demonstrate the need for a dedicated kit selection depending on the desired single cell assay.
   Cell Type:  notcancer-embryonic stem and epithelial
   Median Sequencing Depth:  0.000000
   Publication:  Comparison of seven single cell whole genome amplification commercial kits using targeted sequencing
   DOI:  10.1038/s41598-021-96045-9