Spatial deconvolution from bulk DNA methylation profiles determines intratumoral epigenetic heterogeneity.

ABSTRACT:

Background

Intratumoral heterogeneity emerges from accumulating genetic and epigenetic changes during tumorigenesis, which may contribute to therapeutic failure and drug resistance. However, the lack of a quick and convenient approach to determine the intratumoral epigenetic heterogeneity (eITH) limit the application of eITH in clinical settings. Here, we aimed to develop a tool that can evaluate the eITH using the DNA methylation profiles from bulk tumors.

Methods

Genomic DNA of three laser micro-dissected tumor regions, including digestive tract surface, central bulk, and invasive front, was extracted from formalin-fixed paraffin-embedded sections of colorectal cancer patients. The genome-wide methylation profiles were generated with methylation array. The most variable me

SUBMITTER: Liu B 

PROVIDER: S-EPMC11756021 | biostudies-literature | 2025 Jan

REPOSITORIES: biostudies-literature