Statistical modeling and significance estimation of multi-way chromatin contacts with HyperloopFinder.

ABSTRACT: Recent advances in chromatin conformation capture technologies, such as SPRITE and Pore-C, have enabled the detection of simultaneous contacts among multiple chromatin loci. This has made it possible to investigate the cooperative transcriptional regulation involving multiple genes and regulatory elements at the resolution of a single molecule. However, these technologies are unavoidably subject to the random polymer looping effect and technical biases, making it challenging to distinguish genuine regulatory relationships directly from random polymer interactions. Here, we present HyperloopFinder, a method for identifying regulatory multi-way chromatin contacts (hyperloops) by jointly modeling the random polymer looping effect and technical biases to estimate the statistical significance o

SUBMITTER: Wang W 

PROVIDER: S-EPMC11246602 | biostudies-literature | 2024 May

REPOSITORIES: biostudies-literature