Results 11 to 20 of about 34,814 (245)
Optical melting measurements of nucleic acid thermodynamics. [PDF]
Methods Enzymol, 2009 Optical melting experiments provide measurements of thermodynamic parameters for nucleic acids. These thermodynamic parameters are widely used in RNA structure prediction programs and DNA primer design software. This review briefly summarizes the theory and underlying assumptions of the method and provides practical details for instrument calibration ...
Schroeder SJ, Turner DH.
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Thermodynamic analysis of Zα domain-nucleic acid interactions [PDF]
Biochemical Journal, 2022 Abstract DNA/RNA molecules adopting the left-handed conformation (Z-form) have been attributed with immunogenic properties. However, their biological role and importance has been a topic of debate for many years. The discovery of Z-DNA/RNA binding domains (Zα domains) in varied proteins that are involved in the innate
Bharath Srinivasan +2 more
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Thermodynamic Analysis of Nylon Nucleic Acids [PDF]
ChemBioChem, 2008 AbstractThe stability and structure of nylon nucleic acid duplexes with complementary DNA and RNA strands was examined. Thermal denaturing studies of a series of oligonucleotides that contained nylon nucleic acids (1–5 amide linkages) revealed that the amide linkage significantly enhanced the binding affinity of nylon nucleic acids towards both ...
Yu, Liu +6 more
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NTDB: Thermodynamic Database for Nucleic Acids [PDF]
Nucleic Acids Research, 2001 A new thermodynamic database for normal and modified nucleic acids has been developed. This Thermodynamic Database for Nucleic Acids (NTDB) includes sequence, structure and thermodynamic information as well as experimental methods and conditions. In this release, there are 1851 sequences containing both normal and modified nucleic acids.
Wing Lok Abe Kurtz Chiu +4 more
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Thermodynamic Analysis of Interacting Nucleic Acid Strands [PDF]
SIAM Review, 2007 Motivated by the analysis of natural and engineered DNA and RNA systems, we present the first algorithm for calculating the partition function of an unpseudoknotted complex of multiple interacting nucleic acid strands. This dynamic program is based on a rigorous extension of secondary structure models to the multistranded case, addressing ...
Robert M. Dirks +4 more
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What Controls the Hybridization Thermodynamics of Spherical Nucleic Acids?* [PDF]
Journal of the American Chemical Society, 2015 The hybridization of free oligonucleotides to densely packed, oriented arrays of DNA modifying the surfaces of spherical nucleic acid (SNA)-gold nanoparticle conjugates occurs with negative cooperativity; i.e., each binding event destabilizes subsequent binding events. DNA hybridization is thus an ever-changing function of the number of strands already
Pratik S, Randeria +6 more
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Thermodynamic database for protein–nucleic acid interactions (ProNIT) [PDF]
Bioinformatics, 2001 Abstract Motivation: Protein–nucleic acid interactions are fundamental to the regulation of gene expression. In order to elucidate the molecular mechanism of protein–nucleic acid recognition and analyze the gene regulation network, not only structural data but also quantitative binding data are necessary.
Ponraj Prabakaran +6 more
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NTDB: Thermodynamic Database for Nucleic Acids, Version 2.0 [PDF]
Nucleic Acids Research, 2003 The second release of Thermodynamic Database for Nucleic Acids, NTDB 2.0, includes more than 4600 entries (250% increase over release 1.0). It contains sequence types and details of several thermodynamic parameters (enthalpy, DeltaH; entropy, DeltaS; Gibbs free energy, DeltaG; melting temperature, T(m)), experimental models and methods for extracting ...
Wing Lok Abe Kurtz Chiu +5 more
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Binding of threading intercalator to nucleic acids: Thermodynamic analyses [PDF]
Nucleic Acids Symposium Series, 2002 The constant melting temperature upon the change in the oligonucleotide concentration showed that the oligonucleotide d(CGCTTTGCG) formed a intramolecular hairpin rather than a duplex with an internal loop. We examined the thermodynamic properties of the interaction between the threading intercalator, naphthalene diimides designated as NDI, and a ...
Hidetaka, Torigoe +5 more
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Viral genome structures are optimal for capsid assembly
eLife, 2013 Understanding how virus capsids assemble around their nucleic acid (NA) genomes could promote efforts to block viral propagation or to reengineer capsids for gene therapy applications.
Jason D Perlmutter +2 more
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