Curves+ is a web-based tool to analyze and visualize nucleic acid structures, the helical backbone and groove parameters.
Nucleic acid structure analysis; Nucleic acids; Structure prediction; Sequence composition, complexity and repeats; Nucleic acid sites, features and motifs
Blanchet C, Pasi M, Zakrzewska K, Lavery R "CURVES+ web server for analyzing and visualizing the helical, backbone and groove parameters of nucleic acid structures." Nucleic Acids Res. 2011; 39(Web Server issue):W68-73 https://doi.org/10.1093/nar/gkr316
PMID: 21558323
PMCID: PMC3125750
Lavery R, Zakrzewska K, Beveridge D, Bishop TC, Case DA, Cheatham T 3rd, Dixit S, Jayaram B, Lankas F, Laughton C, Maddocks JH, Michon A, Osman R, Orozco M, Perez A, Singh T, Spackova N, Sponer J "A systematic molecular dynamics study of nearest-neighbor effects on base pair and base pair step conformations and fluctuations in B-DNA." Nucleic Acids Res, 2010 https://doi.org/10.1093/nar/gkp834
PMID: 19850719
PMCID: PMC2800215
Lavery R, Maddocks JH, Pasi M, Zakrzewska K "Analyzing ion distributions around DNA." Nucleic Acids Res, 2014 https://doi.org/10.1093/nar/gku504
PMID: 24906882
PMCID: PMC4081102
Dans PD, Faustino I, Battistini F, Zakrzewska K, Lavery R, Orozco M "Unraveling the sequence-dependent polymorphic behavior of d(CpG) steps in B-DNA." Nucleic Acids Res, 2014 https://doi.org/10.1093/nar/gku809
PMID: 25223784
PMCID: PMC4191396
Pasi M, Maddocks JH, Beveridge D, Bishop TC, Case DA, Cheatham T 3rd, Dans PD, Jayaram B, Lankas F, Laughton C, Mitchell J, Osman R, Orozco M, Pérez A, Petkevičiūtė D, Spackova N, Sponer J, Zakrzewska K, Lavery R "μABC: a systematic microsecond molecular dynamics study of tetranucleotide sequence effects in B-DNA." Nucleic Acids Res, 2014 https://doi.org/10.1093/nar/gku855
PMID: 25260586
PMCID: PMC4231739
Pasi M, Maddocks JH, Lavery R "Analyzing ion distributions around DNA: sequence-dependence of potassium ion distributions from microsecond molecular dynamics." Nucleic Acids Res, 2015 https://doi.org/10.1093/nar/gkv080
PMID: 25662221
PMCID: PMC4344516
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