DNA nanotweezers studied with a coarse-grained model of DNA. by Ouldridge, T, Louis, A, Doye, J

“…We introduce a coarse-grained rigid nucleotide model of DNA that reproduces the basic thermodynamics of short strands, duplex hybridization, single-stranded stacking, and hairpin formation, and also captures the essential structural properties of DNA: the helical pitch, persistence length, and torsional stiffness of double-stranded molecules, as well as the comparative flexibility of unstacked single strands. …”

DNA-PKcs-dependent signaling of DNA damage in Dictyostelium discoideum. by Hudson, J, Hsu, D, Guo, K, Zhukovskaya, N, Liu, P, Williams, J, Pears, C, Lakin, N

“…In vertebrates, the first step in NHEJ is recruitment of the DNA-dependent protein kinase (DNA-PK) to DNA termini. …”

Input files for example oxDNA simulations of DNA origami by Doye, J

“…The zip file contains cadnano .json files for three example DNA origami and oxDNA input files to first relax and then simulate these DNA origami using molecular dynamics for the oxDNA coarse-grained model. …”

Single molecule mass photometry of DNA and DNA-protein interactions by Li, Y

Subjects: “…DNA-protein interactions…”

DNA nanotweezers studied with a coarse-grained model of DNA by Ouldridge, T, Louis, A, Doye, J

“…We introduce a coarse-grained rigid nucleotide model of DNA that reproduces the basic thermodynamics of short strands: duplex hybridization, single-stranded stacking and hairpin formation, and also captures the essential structural properties of DNA: the helical pitch, persistence length and torsional stiffness of double-stranded molecules, as well as the comparative flexibility of unstacked single strands. …”

DNA-PAINT microscope data of a DNA nanostructure printer by Benson, E, Carrascosa Marzo, R, Bath, J, Turberfield, A

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Tapered optical fiber DNA biosensor for detecting Leptospira DNA by Lam, Jia-Yong, Yaacob, Mohd Hanif, Chee, Hui-Yee

“…Objective: To establish a DNA detection platform based on a tapered optical fiber to detect Leptospira DNA by targeting the leptospiral secY gene. …”

A DNA sequence design for direct-proportional length-based DNA computing using DNA Sequence Generator / by 238089 Wan Nazihah Wan Ibrahim, Wan Nazihah Wan Ibrahim, 1983-, author, Tri, Basuki Kurniawan, 1974-, author, Marzuki Khalid, author, Osamu Ono, author, Internatinol Conference on Innovative Computing Information and Control (2nd : 2007 : Kumamoto, Japan)i

The Sole DNA Ligase in Entamoeba histolytica Is a High-Fidelity DNA Ligase Involved in DNA Damage Repair by Elisa Azuara-Liceaga, Abigail Betanzos, Abigail Betanzos, Cesar S. Cardona-Felix, Cesar S. Cardona-Felix, Elizabeth J. Castañeda-Ortiz, Helios Cárdenas, Rosa E. Cárdenas-Guerra, Guillermo Pastor-Palacios, Guillermina García-Rivera, David Hernández-Álvarez, Carlos H. Trasviña-Arenas, Corina Diaz-Quezada, Esther Orozco, Luis G. Brieba

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Correction: Spermine Attenuates the Action of the DNA Intercalator, Actinomycin D, on DNA Binding and the Inhibition of Transcription and DNA Replication. by Sheng-Yu Wang, Alan Yueh-Luen Lee, Yi-Hua Lai, Jeremy J. W. Chen, Wen-Lin Wu, Jeu-Ming P. Yuann, Wang-Lin Su, Show-Mei Chuang, Ming-Hon Hou

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Correction: Spermine Attenuates the Action of the DNA Intercalator, Actinomycin D, on DNA Binding and the Inhibition of Transcription and DNA Replication

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DNA Methylation and RNA-DNA Hybrids Regulate the Single-Molecule Localization of a DNA Methyltransferase on the Bacterial Nucleoid by Nicolas L. Fernandez, Ziyuan Chen, David E. H. Fuller, Lieke A. van Gijtenbeek, Taylor M. Nye, Julie S. Biteen, Lyle A. Simmons

“…To address DnmA regulation, we tested substrate binding in vitro and found that DnmA binds poorly to methylated DNA and to an RNA-DNA hybrid with the DNA recognition sequence. …”
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DNA Polymerase-Parental DNA Interaction Is Essential for Helicase-Polymerase Coupling during Bacteriophage T7 DNA Replication by Chen-Yu Lo, Yang Gao

Subjects: “…DNA replication…”
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Use of sera cell free DNA (cfDNA) and exovesicle-DNA for the molecular diagnosis of chronic Chagas disease. by Noelia Lozano, Mercedes Gomez Samblas, Eva Calabuig, María José Giménez Martí, Maria Dolores Gómez Ruiz, José Miguel Sahuquillo Arce, Sergio Sequera-Arquelladas, José Miguel Molina Moreno, M Trelis, Antonio Osuna

“…When the nucleic acids thus purified were assayed as a template and amplified with kinetoplastid DNA and nuclear satellite DNA primers, a 100% positivity rate was obtained for all positive samples assayed with kDNA-specific primers and 96% when SAT primers were used. …”
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A New Electrochemical DNA Sensor for Sequence-Specific DNA Detection Based on DNA-functionalized CdS Nanoparticle by Liao Fusheng, Wan Long, Wei Guobing, Peng Hong, Fan Hao

Subjects: “…DNA…”
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Evaluation of bisulfite kits for DNA methylation profiling in terms of DNA fragmentation and DNA recovery using digital PCR. by Sam Kint, Ward De Spiegelaere, Jonas De Kesel, Linos Vandekerckhove, Wim Van Criekinge

“…DNA methylation is one of the most important epigenetic modifications in the regulation of gene transcription. …”
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The primosomal protein DnaD inhibits cooperative DNA binding by the replication initiator DnaA in Bacillus subtilis by Bonilla, Carla Y., Grossman, Alan Davis

“…DnaA is an AAA+ ATPase and the conserved replication initiator in bacteria. …”
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De novo DNA synthesis by human DNA polymerase lambda, DNA polymerase mu and terminal deoxyribonucleotidyl transferase. by Ramadan, K, Shevelev, I, Maga, G, Hübscher, U

“…DNA polymerases (pols) catalyse the synthesis of DNA. …”

Photoinduced in situ generation of DNA-targeting ligands: DNA-binding and DNA-photodamaging properties of benzo[c]quinolizinium ions by Julika Schlosser, Olga Fedorova, Yuri Fedorov, Heiko Ihmels

Subjects: “…dna intercalators…”
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Role of Translesion Synthesis DNA Polymerases in DNA Replication in the Presence of a Weak DNA Polymerase δ in Saccharomyces cerevisiae by Likui Zhang, Yanchao Huang, Xinyuan Zhu, Yuxiao Wang, Haoqiang Shi, Min Chen, Kunming Dong, Xiaojian Zhou

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