Nanopore-based cell-free DNA fragmentation and methylation profiles from the cerebral spinal fluid of patients with lung cancer brain metastases.

ABSTRACT:

Background

Non-small cell lung cancer (NSCLC) patients with brain metastases (BMET) have a poor prognosis. Cerebrospinal fluid (CSF) is a source of cell free DNA (cfDNA) from the brain and its methylation and fragmentation properties may be an indicator of NSCLC-BMET.

Methods

We applied a nanopore single-molecule sequencing approach to characterize the fragmentation, methylation and hydroxymethylation patterns present in CSF-derived cfDNA from NSCLC-BMET patients (N=15). We compared the cancer cfDNA finding to non-cancer healthy controls (N=11) and their CSF cfDNA. We also compared the fragmentation patterns between CSF-derived cfDNA and plasma-derived cfDNA.

Results

We observed enriched mono-nucleosome levels and significantly higher mono-

SUBMITTER: Chen T 

PROVIDER: S-EPMC12324296 | biostudies-literature | 2025 Jul

REPOSITORIES: biostudies-literature