Results 221 to 230 of about 1,893,739 (263)

Evaluating Sequence Foundation Models for Insect Olfactory Gene Discovery: Failure Modes, Evidence Standards, and a Benchmark Agenda. [PDF]

Insects
Li H, Zhou D, Pu W, Wu G, Xiao C, Gao X, Yu J.   +6 more
europepmc   +1 more source

Integrating the MARTINI2 coarse-grained force field into HADDOCK3 for faster modeling of large biomolecular complexes. [PDF]

Protein Sci
Versini R, Reys V, Kravchenko A, Honorato RV, Bonvin AMJJ.   +4 more
europepmc   +1 more source

Protocol for telomere-to-telomere assembly of Borrelia genomes using a hybrid method. [PDF]

STAR Protoc
Amin AB, Ibarra-Meneses AV, Blanchette M, Fernandez-Prada C, Langlais D.   +4 more
europepmc   +1 more source

Metal-triggered topology switching in bipyridine-modified DNA G-quadruplexes. [PDF]

Nucleic Acids Res
Durmisevic A, Openy J, Majid A, Nanda M, Vilar R, Clever GH.   +5 more
europepmc   +1 more source

3D Genome Engineering Using CRISPR/dCas Systems. [PDF]

Int J Mol Sci
Mamaeva NY, Yakovlev VA, Kristovskiy NV, Feskin PG, Vinnikov RS, Oleinikov PD, Shmakov SA, Shaitan KV, Kirpichnikov MP, Shaytan AK.   +9 more
europepmc   +1 more source

MartiniSurf: Automated Simulations of Surface-Immobilized Biomolecular Systems with Martini. [PDF]

J Chem Inf Model
Jiménez-García JC, López-Gallego F, López X, De Sancho D.   +3 more
europepmc   +1 more source

DNA Structure-Dependent Enrichment of Oxidative Lesions. [PDF]

Chem Res Toxicol
Zewail-Foote M, Klattenhoff AW, Vasquez KM.   +2 more
europepmc   +1 more source

Can intrinsic loop energetics predict G-Quadruplex topology? [PDF]

PLoS Comput Biol
Jurkowski M, Kogut M, Ławicki M, Czub J.   +3 more
europepmc   +1 more source

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Topologically‐Interlocked Minicircles as Probes of DNA Topology and DNA‐Protein Interactions

Chemistry – A European Journal, 2022
AbstractDNA minicircles exist in biological contexts, such as kinetoplast DNA, and are promising components for creating functional nanodevices. They have been used to mimic the topological features of nucleosomal DNA and to probe DNA‐protein interactions such as HIV‐1 and PFV integrases, and DNA gyrase.
Arivazhagan Rajendran, Kirankumar Krishnamurthy, Seojeong Park, Eiji Nakata, Youngjoo Kwon, Takashi Morii   +5 more
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Energetics of twisted DNA topologies

Biophysical Journal, 2021
Our goal is to review the main theoretical models used to calculate free energy changes associated with common, torsion-induced conformational changes in DNA and provide the resulting equations hoping to facilitate quantitative analysis of both in vitro and in vivo studies.
Wenxuan, Xu, David, Dunlap, Laura, Finzi
openaire   +2 more sources