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Refining Cell-free DNA Metagenomics for Sepsis in Acute Leukemia: Towards Standardized Computational Strategies for Host Depletion and Microbial Detection from Shallow-Depth, Low-Coverage Profiles

2025-10-19

Abstract excerpt

<h4>Introduction</h4> Accurate alignment is critical for metagenomic profiling of plasma cell-free DNA (cfDNA), where microbial fragments are short, low in abundance, and often obscured by abundant human DNA. Yet, no unified guideline exists for selecting alignment algorithms in cfDNA studies. <h4>Results</h4> We benchmarked six alignment methods (BWA-MEM2, Minimap2, Bowtie2-sensitive, Bowtie2-very-sensitive, Bo...

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Literature Corpus work
529ae928-b65c-5ef7-89ba-b11fca3b7c4c
DOI
10.1101/2025.10.17.25338171
Open publication

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Refining Cell-free DNA Metagenomics for Sepsis in Acute Leukemia: Towards Standardized Computational Strategies for Host Depletion and Microbial Detection from Shallow-Depth, Low-Coverage ProfilesDOI 10.1101/2025.10.17.25338171
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