Detection of early-stage cancer using similarity-based classification of cell-free DNA fragmentation patterns

Current cancer screening efforts face the dual problems of low patient adherence and a lack of available tests for many cancers, which motivates the development of less invasive multi-cancer early detection strategies. Such strategies will likely involve the use of liquid biopsies, which can analyze biomarkers found in blood for the presence of cancer. We introduce Blackjack, a new detection approach that focuses on the fragmentation patterns of plasma-derived cell-free DNA (cfDNA). Blackjack characterizes a person's cfDNA fragmentation sites with a position probability matrix (PPM) that encod

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