Unsurprisingly, Illumina has become by far the most common NGS method, maintaining roughly an 80 percent share over the last few years. This is largely owing to its versatility. Illumina sequencing has been used to create new reference genomes, including the common tomato, but has been especially useful in cases requiring repeated sequencing of short DNA sequences. For example, Illumina machines are routinely used to quantify the activity of genome editors like CRISPR; template DNA will either be edited or unedited, and reading the area around the edit many times provides an accurate quantification of editing percentages. Similarly, large numbers of short reads are useful for sequencing ancient DNA, taken from bones or other remains, since such samples often have degraded stretches. In addition to its role in the Neanderthal Genome Project, Illumina has been used to sequence 10,000-year-old human bodies and to track migration and population turnover in Neolithic Denmark.
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