Examining the dynamics of three-dimensional genome organization with multitask matrix factorization.

ABSTRACT: Three-dimensional (3D) genome organization, which determines how the DNA is packaged inside the nucleus, has emerged as a key component of the gene regulation machinery. High-throughput chromosome conformation data sets, such as Hi-C, have become available across multiple conditions and time points, offering a unique opportunity to examine changes in 3D genome organization and link them to phenotypic changes in normal and disease processes. However, systematic detection of higher-order structural changes across multiple Hi-C data sets remains a major challenge. Existing computational methods either do not model higher-order structural units or cannot model dynamics across more than two conditions of interest. We address these limitations with tree-guided integrated factorization (TGIF), a

SUBMITTER: Lee DI 

PROVIDER: S-EPMC12047540 | biostudies-literature | 2025 May

REPOSITORIES: biostudies-literature