Results 51 to 60 of about 47,990 (270)

Modeling chromosomes: Beyond pretty pictures [PDF]

, 2017
Recently, Chromosome Conformation Capture (3C) based experiments have highlighted the importance of computational models for the study of chromosome organization.
Fudenberg, Geoffrey, Imakaev, Maksim Viktorovich, Mirny, Leonid A   +2 more
core   +1 more source

Insights about genome function from spatial organization of the genome

Human Genomics, 2018
Over the last 15 years, development of chromosome conformation capture (3C) and its subsequent high-throughput variants in conjunction with the fast development of sequencing technology has allowed investigators to generate large volumes of data giving ...
Shuvra Shekhar Roy, Ananda Kishore Mukherjee, Shantanu Chowdhury   +2 more
doaj   +1 more source

Structural snapshots of Xer recombination reveal activation by synaptic complex remodeling and DNA bending [PDF]

, 2016
Bacterial Xer site-specific recombinases play an essential genome maintenance role by unlinking chromosome multimers, but their mechanism of action has remained structurally uncharacterized. Here, we present two high-resolution structures of Helicobacter
Adams, Afonine, Aihara, Arnold, Aussel, Barre, Barre, Biswas, Blakely, Blakely, Blakely, Britton, Carnoy, Chen, Cortez, Das, Debowski, Debowski, Diagne, Dong, Emsley, Ennifar, Fischer, Gopaul, Gopaul, Grainge, Grindley, Guo, Guo, Hendricks, Holliday, Jayaram, Jo, Kabsch, Karaca, Keller, Kelley, Kim, Krissinel, Kuempel, Le Bourgeois, Lee, Leroux, Li, Luscombe, May, McCoy, Midonet, Nagy, Nolivos, Nunes-Düby, Page, Pargellis, Pettersen, Pérals, Rother, Serre, Steiner, Subramanya, Terwilliger, Turan, Val, Van Duyne, Van Duyne, van Zundert, Vonrhein, Yang, Yang, Yates, Yates, Zawadzki, Zheng   +71 more
core   +4 more sources

In vivo facilitated diffusion model [PDF]

, 2013
Under dilute in vitro conditions transcription factors rapidly locate their target sequence on DNA by using the facilitated diffusion mechanism. However, whether this strategy of alternating between three-dimensional bulk diffusion and one-dimensional ...
Bauer, Max, Metzler, Ralf
core   +4 more sources

3PD: Rapid design of optimal primers for chromosome conformation capture assays

BMC Genomics, 2009
Background Higher eukaryotes control the expression of their genes by mechanisms that we are just beginning to understand. A complex layer of control is the dynamic spatial organization of the nucleus.
Dieterich Christoph, Fröhler Sebastian
doaj   +1 more source

Chromosome conformation capture uncovers potential genome-wide interactions between human conserved non-coding sequences. [PDF]

PLoS ONE, 2011
Comparative analyses of various mammalian genomes have identified numerous conserved non-coding (CNC) DNA elements that display striking conservation among species, suggesting that they have maintained specific functions throughout evolution.
Daniel Robyr, Marc Friedli, Corinne Gehrig, Mélanie Arcangeli, Marilyn Marin, Michel Guipponi, Laurent Farinelli, Isabelle Barde, Sonia Verp, Didier Trono, Stylianos E Antonarakis   +10 more
doaj   +1 more source

cis-regulatory circuits regulating NEK6 kinase overexpression in transformed B cells Are super-enhancer independent [PDF]

, 2017
Alterations in distal regulatory elements that control gene expression underlie many diseases, including cancer. Epigenomic analyses of normal and diseased cells have produced correlative predictions for connections between dysregulated enhancers and ...
Huang, Yue, Koues, Olivia I, Liu, Regina, Oltz, Eugene M, Payton, Jacqueline E, Pyfrom, Sarah C, Zhao, Jiang-yang   +6 more
core   +3 more sources

Comparative analysis of T4 DNA ligases and DNA polymerases used in chromosome conformation capture assays

BioTechniques, 2015
Three-dimensional (3-D) genome organization in the nuclear space affects various genomic functions. Circular chromosome conformation capture (4C-seq) is a powerful technique that allows researchers to measure long-range chromosomal interactions with a ...
Michal Schwartz, Avital Sarusi, Rachel T. Deitch, Moran Tal, Dana Raz, Myong-Hee Sung, Tommy Kaplan, Ofir Hakim   +7 more
doaj   +1 more source

Simultaneous Profiling of Chromosome Conformation and Gene Expression in Single Cells

Bio-Protocol, 2023
Rapid development in single-cell chromosome conformation capture technologies has provided valuable insights into the importance of spatial genome architecture for gene regulation.
Yujie Chen, Heming Xu, Zhiyuan Liu, Dong Xing   +3 more
doaj   +1 more source

Additional insights into the organization of transcriptional regulatory modules based on a 3D model of the Saccharomyces cerevisiae genome

BMC Research Notes, 2022
Objectives Transcriptional regulatory modules are usually modelled via a network, in which nodes correspond to genes and edges correspond to regulatory associations between them.
Thibault Poinsignon, Mélina Gallopin, Jean-Michel Camadro, Pierre Poulain, Gaëlle Lelandais   +4 more
doaj   +1 more source