Genome-wide cancer-specific chromatin accessibility patterns derived from archival processed xenograft tumors.

ABSTRACT: Chromatin accessibility states that influence gene expression and other nuclear processes can be altered in disease. The constellation of transcription factors and chromatin regulatory complexes in cells results in characteristic patterns of chromatin accessibility. The study of these patterns in tissues has been limited because existing chromatin accessibility assays are ineffective for archival formalin-fixed, paraffin-embedded (FFPE) tissues. We have developed a method to efficiently extract intact chromatin from archival tissue via enhanced cavitation with a nanodroplet reagent consisting of a lipid shell with a liquid perfluorocarbon core. Inclusion of nanodroplets during the extraction of chromatin from FFPE tissues enhances the recovery of intact accessible and nucleosome-bound chro

SUBMITTER: Marcel SS 

PROVIDER: S-EPMC8647830 | biostudies-literature | 2021 Dec

REPOSITORIES: biostudies-literature