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Multiple sequence alignments of partially coding nucleic acid sequences [PDF]
BMC Bioinformatics, 2005 Abstract Background High quality sequence alignments of RNA and DNA sequences are an important prerequisite for the comparative analysis of genomic sequence data. Nucleic acid sequences, however, exhibit a much larger sequence heterogeneity compared to their encoded protein sequences due to the redundancy of the genetic ...
Ivo L. Hofacker +3 more
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Enlarged Similarity of Nucleic Acid Sequences [PDF]
DNA Research, 1996 The concept of nucleic acid sequence base alternations is presented. The number of base alterations for the sequences of different length is established. The definition of "enlarged similarity" of nucleic acids sequences on the basis of sequence base alterations is introduced.
Maria A. Korotkova, Eugene V. Korotkov
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Ligation with nucleic acid sequence-based amplification. [PDF]
J Mol Diagn, 2012 This work presents a novel method for detecting nucleic acid targets using a ligation step along with an isothermal, exponential amplification step. We use an engineered ssDNA with two variable regions on the ends, allowing us to design the probe for optimal reaction kinetics and primer binding. This two-part probe is ligated by T4 DNA Ligase only when
Ong C +5 more
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Optimization of Nucleic Acid Sequences [PDF]
Biophysical Journal, 2000 Base sequence influences the structure, mechanics, dynamics, and interactions of nucleic acids. However, studying all possible sequences for a given fragment leads to a number of base combinations that increases exponentially with length. We present here a novel methodology based on a multi-copy approach enabling us to determine which base sequence ...
Ingrid Lafontaine, Richard Lavery
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Sequence-Specific Sensing of Nucleic Acids [PDF]
Trends in Immunology, 2017 Innate immune cells are endowed with many nucleic acid receptors, but the role of sequence in the detection of foreign organisms remains unclear. Can sequence patterns influence recognition? In addition, how can we infer those patterns from sequence data?
Benjamin Greenbaum +2 more
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Impact of Nucleic Acid Sequencing on Viroid Biology [PDF]
International Journal of Molecular Sciences, 2020 The early 1970s marked two breakthroughs in the field of biology: (i) The development of nucleotide sequencing technology; and, (ii) the discovery of the viroids. The first DNA sequences were obtained by two-dimensional chromatography which was later replaced by sequencing using electrophoresis technique.
Charith Raj Adkar-Purushothama +1 more
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A method to find palindromes in nucleic acid sequences [PDF]
Bioinformation, 2013 Various types of sequences in the human genome are known to play important roles in different aspects of genomic functioning. Among these sequences, palindromic nucleic acid sequences are one such type that have been studied in detail and found to influence a wide variety of genomic characteristics.
Mani Shankar +3 more
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Sequence Multiplicity within Spherical Nucleic Acids [PDF]
ACS Nano, 2020 The synthesis and evaluation of spherical nucleic acids (SNAs) incorporating two physically and chemically distinct classes of oligonucleotides (ODNs) at programmed ratios are described. These SNAs are single entity agents that enter the same target cell at defined stoichiometries, and as such allow one to control important cell signaling and ...
Chad A. Mirkin +8 more
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Sensing of nucleic acid sequences using unmodifiednucleic acid as a probe [PDF]
Nucleic Acids Symposium Series, 2007 We present a strategy to generate a light-up fluorophore-aptamer pair. The strategy was based on a modification of a conventional DNA-staining dye to suppress its affinity to the original targets, and subsequent re-selection of aptamers that would bind to the modified dye.
Atsushi Narita +2 more
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