Results 51 to 60 of about 14,400 (274)
Topology and prediction of RNA pseudoknots [PDF]
Bioinformatics, 2011 Abstract Motivation: Several dynamic programming algorithms for predicting RNA structures with pseudoknots have been proposed that differ dramatically from one another in the classes of structures considered. Results: Here, we use the natural topological classification of RNA structures in terms of irreducible components ...
Reidys, Christian M. +5 more
openaire +8 more sources
Annexin A2 binds RNA and reduces the frameshifting efficiency of infectious bronchitis virus.
PLoS ONE, 2011 Annexin A2 (ANXA2) is a protein implicated in diverse cellular functions, including exocytosis, DNA synthesis and cell proliferation. It was recently proposed to be involved in RNA metabolism because it was shown to associate with some cellular mRNA ...
Hoyun Kwak, Min Woo Park, Sunjoo Jeong
doaj +1 more source
Canonical RNA pseudoknot structures [PDF]
Journal of Computational Biology, 2008 21 pages,7 ...
Ma Gang, Christian M. Reidys
openalex +6 more sources
Frontiers in Microbiology, 2022 Senecavirus A (SVA) is an emerging virus that belongs to the genus Senecavirus in the family Picornaviridae. Its genome is a positive-sense and single-stranded RNA, containing two untranslated regions (UTRs).
Fuxiao Liu +13 more
doaj +1 more source
An O(n^5) algorithm for MFE prediction of kissing hairpins and 4-chains in nucleic acids [PDF]
, 2008 Efficient methods for prediction of minimum free energy (MFE) nucleic secondary structures are widely used, both to better understand structure and function of biological RNAs and to design novel nano-structures.
Chen, Ho-Lin +2 more
core +3 more sources
Nucleic Acids Research, 2020 In response to DNA damage, Escherichia coli cells activate the expression of the toxin gene tisB of the toxin–antitoxin system tisB-istR1. Of three isoforms, only the processed, highly structured +42 tisB mRNA is active.
Cédric Romilly +2 more
semanticscholar +1 more source
Counting RNA Pseudoknotted Structures [PDF]
Journal of Computational Biology, 2011 In 2004, Condon and coauthors gave a hierarchical classification of exact RNA structure prediction algorithms according to the generality of structure classes that they handle. We complete this classification by adding two recent prediction algorithms. More importantly, we precisely quantify the hierarchy by giving closed or asymptotic formulas for the
Saule, Cédric +3 more
openaire +3 more sources
TransUFold: Unlocking the structural complexity of short and long RNA with pseudoknots
Mathematical Biosciences and Engineering, 2023 The RNA secondary structure is like a blueprint that holds the key to unlocking the mysteries of RNA function and 3D structure. It serves as a crucial foundation for investigating the complex world of RNA, making it an indispensable component of research
Yunxiang Wang +4 more
doaj +1 more source
Pseudoknot-Generating Operation
Theoretical Computer Science, 2016 Abstract A pseudoknot is a crucial intra-molecular structure formed primarily in RNA strands and closely related to important biological processes. This motivates us to define an operation that generates all pseudoknots from a given sequence and consider algorithmic and language theoretic properties of the operation.
Kai Salomaa +3 more
openaire +2 more sources
Psyquandles, Singular Knots and Pseudoknots [PDF]
Tokyo Journal of Mathematics, 2019 20 ...
NELSON, Sam +2 more
openaire +4 more sources