Genome wide clustering on integrated chromatin states and Micro-C contacts reveals chromatin interaction signatures

Genome wide clustering on integrated chromatin states and Micro-C contacts reveals chromatin interaction signatures

Abstract We can now analyze 3D physical interactions of chromatin regions with chromatin conformation capture technologies, in addition to the 1D chromatin state annotations, but methods to integrate this information are lacking. We propose a method to integrate the chromatin state of interacting re...

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Veröffentlicht in:NAR genomics and bioinformatics 2024-10, Vol.6 (4), p.lqae136
Hauptverfasser: Sexton, Corinne E, Victor Paul, Sylvia, Barth, Dylan, Han, Mira V
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creator Sexton, Corinne E
Victor Paul, Sylvia
Barth, Dylan
Han, Mira V
description Abstract We can now analyze 3D physical interactions of chromatin regions with chromatin conformation capture technologies, in addition to the 1D chromatin state annotations, but methods to integrate this information are lacking. We propose a method to integrate the chromatin state of interacting regions into a vector representation through the contact-weighted sum of chromatin states. Unsupervised clustering on integrated chromatin states and Micro-C contacts reveals common patterns of chromatin interaction signatures. This provides an integrated view of the complex dynamics of concurrent change occurring in chromatin state and in chromatin interaction, adding another layer of annotation beyond chromatin state or Hi-C contact separately.
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title Genome wide clustering on integrated chromatin states and Micro-C contacts reveals chromatin interaction signatures
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