The 3D organization of chromatin colors in mammalian nuclei - Archive ouverte HAL Accéder directement au contenu
Article Dans Une Revue Methods in Molecular Biology Année : 2022

The 3D organization of chromatin colors in mammalian nuclei

Résumé

While many computational methods have been proposed for 3D chromosome reconstruction from chromosomal contact maps, these methods are rarely used for the interpretation of such experimental data, in particular Hi-C data. We posit that this is due to the lack of an easy-to-use implementation of the proposed algorithms, as well as to the important computational cost of most methods. We here give a detailed implementation of the fast ShRec3D algorithm. We provide a tutorial that will enable the reader to reconstruct 3D consensus structures for human chromosomes and to decorate these structures with chromatin epigenetic states. We use this methodology to show that the bivalent chromatin, including Polycomb-rich domains, is spatially segregated and located in between the active and the quiescent chromatin compartments.
Fichier principal
Vignette du fichier
Mozziconacci-MiMB-v1_preprint.pdf (4.27 Mo) Télécharger le fichier
Origine : Fichiers produits par l'(les) auteur(s)

Dates et versions

hal-03172656 , version 1 (17-03-2021)

Identifiants

Citer

Leopold Carron, Jean-Baptiste Morlot, Annick Lesne, Julien Mozziconacci. The 3D organization of chromatin colors in mammalian nuclei. Methods in Molecular Biology, 2022, 2301, pp. 317-336. ⟨10.1007/978-1-0716-1390-0_17⟩. ⟨hal-03172656⟩
195 Consultations
163 Téléchargements

Altmetric

Partager

Gmail Facebook X LinkedIn More