Plasma whole-genome library preparation was performed as described in refs. 21 (link) and 9 (link). Briefly, for both cohorts, cell-free DNA (cfDNA) was extracted from plasma using the QIAamp Circulating Nucleic Acid Kit. Libraries were prepared with 5–250 ng of cfDNA using the NEBNext DNA Library Prep Kit. Whole-genome libraries were sequenced using 100 bp paired-end runs on HiSeq 2000/2500 sequencers (Illumina).
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