Gaining insights into Alzheimer's disease by predicting chromatin spatial organization.

ABSTRACT:

Motivation

CTCF is a conserved protein involved in the establishment and maintenance of topologically associating domains (TADs) and loops. Alzheimer's disease (AD) represents the most common form of dementia, affecting over 50 million elderly individuals. Epigenetic alterations are a hallmark of AD, and epigenetic disruptions are able to affect CTCF binding and looping. Understanding the dynamics of CTCF loops behind AD may lead to new, undiscovered contributions of CTCF to the etiology of AD. To understand the dynamics behind CTCF loops, we developed a CTCF loop predictor using different genomic and epigenomic features, such as CTCF motif information, CTCF protein binding information, and different histone marks.

Results

We obtained F-scores of over 0.9 in GM12878 and K562

SUBMITTER: Villaman C 

PROVIDER: S-EPMC12627407 | biostudies-literature | 2025

REPOSITORIES: biostudies-literature