Brain tumor classification from FFPE samples using nanopore methylation sequencing.

ABSTRACT: Oxford Nanopore Technology (ONT)-based methylation sequencing is emerging as a powerful approach for the rapid and accurate classification of brain tumors, an essential component of precision oncology. However, its broader clinical adoption has been limited by reliance on fresh-frozen (FF) tissue, whereas the vast majority of clinical specimens are formalin-fixed paraffin-embedded (FFPE). In this study, we address this limitation by evaluating the effects of FFPE processing on DNA methylation profiles and introducing a validated protocol for ONT-based classification using DNA extracted directly from pathology-marked regions on stained FFPE slides. This approach enables the targeted selection of tumor-rich areas following histological assessment, thereby improving DNA input quality and tumo

SUBMITTER: Feinberg-Gorenshtein G 

PROVIDER: S-EPMC12574666 | biostudies-literature | 2025 Dec

REPOSITORIES: biostudies-literature