Results 21 to 30 of about 19,126 (200)

Modeling of DNA binding to the condensin hinge domain using molecular dynamics simulations guided by atomic force microscopy.

PLoS Computational Biology, 2021
The condensin protein complex compacts chromatin during mitosis using its DNA-loop extrusion activity. Previous studies proposed scrunching and loop-capture models as molecular mechanisms for the loop extrusion process, both of which assume the binding ...
Hiroki Koide, Noriyuki Kodera, Shveta Bisht, Shoji Takada, Tsuyoshi Terakawa   +4 more
doaj   +1 more source

TAD cliques predict key features of chromatin organization

BMC Genomics, 2021
Background Mechanisms underlying genome 3D organization and domain formation in the mammalian nucleus are not completely understood. Multiple processes such as transcriptional compartmentalization, DNA loop extrusion and interactions with the nuclear ...
Tharvesh M. Liyakat Ali, Annaël Brunet, Philippe Collas, Jonas Paulsen   +3 more
doaj   +1 more source

Two CTCF motifs impede cohesin-mediated DNA loop extrusion

Molecular Cell
Cees Dekker, Roman Barth, Richard Janissen   +2 more
exaly   +2 more sources

Testing pseudotopological and nontopological models for SMC-driven DNA loop extrusion against roadblock-traversal experiments

Scientific Reports, 2023
DNA loop extrusion by structural-maintenance-of-chromosome (SMC) complexes has emerged as a primary organizing principle for chromosomes. The mechanism by which SMC motor proteins extrude DNA loops is still unresolved and much debated.
Roman Barth, Biswajit Pradhan, Eugene Kim, Iain F. Davidson, Jaco van der Torre, Jan-Michael Peters, Cees Dekker   +6 more
doaj   +1 more source

Formation of Chromosomal Domains by Loop Extrusion

Cell Reports, 2016
Topologically associating domains (TADs) are fundamental structural and functional building blocks of human interphase chromosomes, yet the mechanisms of TAD formation remain unclear. Here, we propose that loop extrusion underlies TAD formation.
Geoffrey Fudenberg, Maxim Imakaev, Carolyn Lu, Anton Goloborodko, Nezar Abdennur, Leonid A. Mirny   +5 more
doaj   +1 more source

STAG2 promotes the myelination transcriptional program in oligodendrocytes

eLife, 2022
Cohesin folds chromosomes via DNA loop extrusion. Cohesin-mediated chromosome loops regulate transcription by shaping long-range enhancer–promoter interactions, among other mechanisms.
Ningyan Cheng, Guanchen Li, Mohammed Kanchwala, Bret M Evers, Chao Xing, Hongtao Yu   +5 more
doaj   +1 more source

DNA hypermethylation/boundary control loss identified in retinoblastomas associated with genetic and epigenetic inactivation of the RB1 gene promoter

Epigenetics, 2021
DNA hypermethylation events occur frequently in human cancers, but less is known of the mechanisms leading to their initiation. Retinoblastoma, an intraocular cancer affecting young children, involves bi-allelic inactivation of the RB1 gene (RB−/-).
AM Raizis, HM Racher, A Foucal, H Dimaras, BL Gallie, PM George   +5 more
doaj   +1 more source

Cohesin supercoils DNA during loop extrusion

Cell Reports
Jan-Michaél Peters
exaly   +2 more sources

Dynamic 3D Locus Organization and Its Drivers Underpin Immunoglobulin Recombination

Frontiers in Immunology, 2021
A functional adaptive immune system must generate enormously diverse antigen receptor (AgR) repertoires from a limited number of AgR genes, using a common mechanism, V(D)J recombination.
Carolyn H. Rogers, Olga Mielczarek, Anne E. Corcoran   +2 more
doaj   +1 more source

The interplay between asymmetric and symmetric DNA loop extrusion

eLife, 2020
Chromosome compaction is essential for reliable transmission of genetic information. Experiments suggest that ∼1000-fold compaction is driven by condensin complexes that extrude chromatin loops, by progressively collecting chromatin fiber from one or ...
Edward J Banigan, Leonid A Mirny
doaj   +1 more source