Circuit topology analysis of cellular genome reveals signature motifs, conformational heterogeneity, and scaling

Publikation: Beitrag in FachzeitschriftForschungsartikelBeigetragenBegutachtung

Beitragende

Abstract

Reciprocal regulation of genome topology and function is a fundamental and enduring puzzle in biology. The wealth of data provided by Hi-C libraries offers the opportunity to unravel this relationship. However, there is a need for a comprehensive theoretical framework in order to extract topological information for genome characterization and comparison. Here, we develop a toolbox for topological analysis based on Circuit Topology, allowing for the quantification of inter- and intracellular genomic heterogeneity, at various levels of fold complexity: pairwise contact arrangement, higher-order contact arrangement, and topological fractal dimension. Single-cell Hi-C data were analyzed and characterized based on topological content, revealing not only a strong multiscale heterogeneity but also highly conserved features such as a characteristic topological length scale and topological signature motifs in the genome. We propose that these motifs inform on the topological state of the nucleus and indicate the presence of active loop extrusion.

Details

OriginalspracheEnglisch
Aufsatznummer103866
FachzeitschriftiScience
Jahrgang25
Ausgabenummer3
Frühes Online-Datum5 Feb. 2022
PublikationsstatusVeröffentlicht - 18 März 2022
Peer-Review-StatusJa

Externe IDs

Scopus 85124761541
Mendeley 1e81b048-ea92-3abe-b323-d37837ad3087
PubMed 35243229

Schlagworte

ASJC Scopus Sachgebiete

Schlagwörter

  • Genomics, In silico biology, Mathematical biosciences

Bibliotheksschlagworte