Shedding light on the base-pair opening dynamics of nucleic acids in living human cells [PDF]
Nature Communications, 2022 Base-pair opening is important for nucleic acids to exert biological functions, but studying its dynamics inside living cells is challenging. Here, the authors determine the base-pair opening kinetics of hairpin and G-quadruplex structures inside living ...
Yudai Yamaoki +5 more
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Highly specific unnatural base pair systems as a third base pair for PCR amplification [PDF]
Nucleic Acids Research, 2011 Toward the expansion of the genetic alphabet of DNA, we present highly efficient unnatural base pair systems as an artificial third base pair for PCR. Hydrophobic unnatural base pair systems between 7-(2-thienyl)imidazo[4,5-b]pyridine (Ds) and 2-nitro-4-propynylpyrrole (Px) were fine-tuned for efficient PCR, by assessing the amplification efficiency ...
Akira Sato +6 more
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Cooperativity and Interdependency between RNA Structure and RNA–RNA Interactions
Non-Coding RNA, 2021 Complex RNA–RNA interactions are increasingly known to play key roles in numerous biological processes from gene expression control to ribonucleoprotein granule formation.
Ilias Skeparnias, Jinwei Zhang
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The base-pairing ability of the base pair-mimic nucleosides [PDF]
Nucleic Acids Symposium Series, 2007 The deoxyadenosine derivative tethering the phenyl group at N6 of deoxyadenosine (A(phe)) was previously found to have a property to stack strongly with adjacent nucleotide bases in a DNA duplex. On the other hand, it was also demonstrated that DNA polymerases selectively incorporated dTTP opposite A(phe) in a template DNA strand.
Shu-ichi Nakano +3 more
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Maternal Factor V Leiden Mutation in Preeclampsia: A Case-Control South Eastern Indian Tertiary Care Hospital Based Study [PDF]
Journal of Clinical and Diagnostic Research, 2020 Introduction: Pre-Eclampsia (PE) is a pregnancy-specific disorder which further complicates and leads to eclampsia. The Factor V Leiden (FVL) is an autosomal dominant genetic abnormality with incomplete penetrance predisposes to thrombosis.
Krishnaveni Changalvala +6 more
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The equilibrium partition function and base pair binding probabilities for RNA secondary structure [PDF]
Biopolymers, 1990 John S. McCaskill
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The RNA Base-Pairing Problem and Base-Pairing Solutions [PDF]
Cold Spring Harbor Perspectives in Biology, 2018 RNA molecules are folded into structures and complexes to perform a wide variety of functions. Determination of RNA structures and their interactions is a fundamental problem in RNA biology. Most RNA molecules in living cells are large and dynamic, posing unique challenges to structure analysis.
Zhipeng Lu, Howard Y. Chang
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Modelling DNA-strand displacement reactions in the presence of base-pair mismatches.
Journal of the American Chemical Society, 2020 Toehold-mediated strand displacement is the most abundantly used method to achieve dynamic switching in DNA-based nanotechnology. An 'invader' strand binds to the 'toehold' overhang of a target strand and replaces a target-bound 'incumbent' strand ...
Patrick Irmisch, T. Ouldridge, R. Seidel
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SS/SW BASE PAIRS ARE THE ONLY BASE PAIRS INVOLVED IN LONG-RANGE RNA TERTIARY MOTIFS
Journal of Bioinformatics and Genomics, 2020 The structure of noncoding RNAs largely determines their functions. With the rapid growth of experimental data on the RNA secondary structures, the task of predicting its spatial structure becomes the most urgent task of RNA bioinformatics.
Manakov, A.K. +2 more
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High Base Pair Opening Rates in Tracts of GC Base Pairs [PDF]
Journal of Biological Chemistry, 1999 Sequence-dependent structural features of the DNA double helix have a strong influence on the base pair opening dynamics. Here we report a detailed study of the kinetics of base pair breathing in tracts of GC base pairs in DNA duplexes derived from 1H NMR measurements of the imino proton exchange rates upon titration with the exchange catalyst ammonia.
Hartmut Fritzsche +2 more
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