Results 51 to 60 of about 148,408 (312)

Conservation of Nucleosome Positions in Duplicated and Orthologous Gene Pairs

The Scientific World Journal, 2012
Although nucleosome positions tend to be conserved in gene promoters, whether they are conserved in duplicated and orthologous genes is unknown. In order to elucidate how nucleosome positions are conserved between duplicated and orthologous gene pairs, I
Hiromi Nishida
doaj   +1 more source

Conserved substitution patterns around nucleosome footprints in eukaryotes and Archaea derive from frequent nucleosome repositioning through evolution. [PDF]

, 2013
Nucleosomes, the basic repeat units of eukaryotic chromatin, have been suggested to influence the evolution of eukaryotic genomes, both by altering the propensity of DNA to mutate and by selection acting to maintain or exclude nucleosomes in particular ...
Becker, Erin, Facciotti, Marc, Lehner, Ben, Nislow, Corey, Warnecke, Tobias   +4 more
core   +2 more sources

Structural basis of nucleosome transcription mediated by Chd1 and FACT

Nature Structural & Molecular Biology, 2020
Efficient transcription of RNA polymerase II (Pol II) through nucleosomes requires the help of various factors. Here we show biochemically that Pol II transcription through a nucleosome is facilitated by the chromatin remodeler Chd1 and the histone ...
L. Farnung, M. Ochmann, M. Engeholm, P. Cramer   +3 more
semanticscholar   +1 more source

Ion counting demonstrates a high electrostatic field generated by the nucleosome

eLife, 2019
In eukaryotes, a first step towards the nuclear DNA compaction process is the formation of a nucleosome, which is comprised of negatively charged DNA wrapped around a positively charged histone protein octamer.
Magdalena Gebala, Stephanie L Johnson, Geeta J Narlikar, Dan Herschlag   +3 more
doaj   +1 more source

Crystal structures of heterotypic nucleosomes containing histones H2A.Z and H2A [PDF]

Open Biology, 2016
H2A.Z is incorporated into nucleosomes located around transcription start sites and functions as an epigenetic regulator for the transcription of certain genes.
Naoki Horikoshi, Yasuhiro Arimura, Hiroyuki Taguchi, Hitoshi Kurumizaka   +3 more
doaj   +1 more source

Analysis of nucleosome repositioning by yeast ISWI and Chd1 chromatin remodeling complexes [PDF]

, 2006
ISWI proteins form the catalytic core of a subset of ATP-dependent chromatin remodelling activities in eukaryotes from yeast to man. Many of these complexes have been found to reposition nucleosomes, but with different directionalities.
Alen, Beard, Becker, Brehm, Bruno, Bruno, Davey, Dillingham, Drew, Eberharter, Elfring, Fazzio, Flaus, Flaus, Flaus, Hamiche, Kagalwala, Kang, Kassabov, Langst, Lorch, Lowary, Luger, Lusser, Meersseman, Mizuguchi, Morillon, Rigaut, Schnitzler, Tran, Tsukiyama, Tsukiyama, Vary, Zofall   +33 more
core   +4 more sources

Statistical-mechanical lattice models for protein-DNA binding in chromatin [PDF]

, 2010
Statistical-mechanical lattice models for protein-DNA binding are well established as a method to describe complex ligand binding equilibriums measured in vitro with purified DNA and protein components. Recently, a new field of applications has opened up
Adams C C, Akhrem A A, Bash R C, Gurskii G V, Gurskii G V, Hill T L, Iovanovich B, Karsten Rippe, Lando D Y, Lando D Y, Längst G, Markov A A, Mirny L A, Nechipurenko Y D, Nechipurenko Y D, Nechipurenko Y D, Poland D, Schellman J A, Svaren J, Teif V B, Teif V B, Teif V B, van Holde K E, Vladimir B Teif, Zasedatelev A S   +24 more
core   +2 more sources

New insights into two distinct nucleosome distributions: comparison of cross-platform positioning datasets in the yeast genome

BMC Genomics, 2010
Background Recently, a number of high-resolution genome-wide maps of nucleosome locations in S. cerevisiae have been derived experimentally. However, nucleosome positions are determined in vivo by the combined effects of numerous factors.
Deng Yangyang, Wang Jiang, Dai Zhiming, Xiang Qian, Dai Xianhua, Feng Jihua, He Caisheng   +6 more
doaj   +1 more source

Thermodynamic modeling of genome-wide nucleosome depleted regions in yeast.

PLoS Computational Biology, 2021
Nucleosome positioning in the genome is essential for the regulation of many nuclear processes. We currently have limited capability to predict nucleosome positioning in vivo, especially the locations and sizes of nucleosome depleted regions (NDRs). Here,
Hungyo Kharerin, Lu Bai
doaj   +1 more source

A systematic analysis of nucleosome core particle and nucleosome-nucleosome stacking structure [PDF]

Scientific Reports, 2018
AbstractChromatin condensation is driven by the energetically favourable interaction between nucleosome core particles (NCPs). The close NCP-NCP contact, stacking, is a primary structural element of all condensed states of chromatin in vitro and in vivo.
Korolev, Nikolay, Lyubartsev, Alexander P., Nordenskiöld, Lars   +2 more
openaire   +3 more sources