Results 91 to 100 of about 14,834 (261)
, 2003 Ab initio RNA secondary structure predictions have long dismissed helices interior to loops, so-called pseudoknots, despite their structural importance.
A. Xayaphoummine +22 more
core +3 more sources
Small synthetic molecule-stabilized RNA pseudoknot as an activator for –1 ribosomal frameshifting
Nucleic Acids Research, 2018 Programmed –1 ribosomal frameshifting (−1PRF) is a recoding mechanism to make alternative proteins from a single mRNA transcript. −1PRF is stimulated by cis-acting signals in mRNA, a seven-nucleotide slippery sequence and a downstream secondary structure
Saki Matsumoto +4 more
semanticscholar +1 more source
Interplay between RNA‐protein interactions and RNA structures in gene regulation
FEBS Open Bio, Volume 16, Issue 2, Page 299-313, February 2026.Methodological advances in mapping transcriptome‐wide RNA‐protein interactions and RNA structures have started to uncover the potential of RNP conformations in gene regulation. Competing RNA–RNA, RNA‐protein and protein–protein interactions shape the compaction and function of RNPs throughout their lifetime and may provide novel therapeutic targets in ...
Jenni Rapakko +2 more
wiley +1 more source
jViz.RNA 4.0-Visualizing pseudoknots and RNA editing employing compressed tree graphs.
PLoS ONE, 2019 Previously, we have introduced an improved version of jViz.RNA which enabled faster and more stable RNA visualization by employing compressed tree graphs.
Boris Shabash, Kay C Wiese
doaj +1 more source
A bacterial riboswitch class for the thiamin precursor HMP-PP employs a terminator-embedded aptamer
eLife, 2019 We recently implemented a bioinformatics pipeline that can uncover novel, but rare, riboswitch candidates as well as other noncoding RNA structures in bacteria.
Ruben M Atilho +4 more
doaj +1 more source
Nop9 binds the central pseudoknot region of 18S rRNA
Nucleic Acids Research, 2017 The assembly of eukaryotic ribosomes requires numerous factors that transiently associate with evolving pre-ribosomal particles. The Pumilio repeat-containing protein Nop9 briefly associates with the 90S pre-ribosome during its co-transcriptional ...
B. Wang, K. Ye
semanticscholar +1 more source
Progress in RNA‐Targeted Therapeutics for Human Diseases
MedComm, Volume 7, Issue 2, February 2026.RNA‐targeted therapies are revolutionizing molecular medicine by transitioning from a “protein‐centric” focus to an “RNA‐regulatory network” approach. Leveraging RNA's diverse roles in gene regulation, signaling, and epigenetic modifications, advanced platforms such as ASOs, siRNA, miRNA, mRNA, aptamers, shRNA, and CRISPR/Cas systems are enabling ...
Wangzheqi Zhang +10 more
wiley +1 more source
Pseudoknots in RNA folding landscapes
Bioinformatics, 2015 Abstract Motivation: The function of an RNA molecule is not only linked to its native structure, which is usually taken to be the ground state of its folding landscape, but also in many cases crucially depends on the details of the folding pathways such as stable folding intermediates or the timing of the folding process itself. To model
Kucharik, Marcel +3 more
openaire +4 more sources
PseudoBase: structural information on RNA pseudoknots [PDF]
Nucleic Acids Research, 2001 PseudoBase is a database containing structural, functional and sequence data related to RNA pseudo-knots. It can be reached at http://wwwbio.LeidenUniv.nl/ approximately Batenburg/PKB.html. For each pseudoknot, thirteen items are stored, for example the relevant sequence, the stem positions of the pseudoknot, the EMBL accession number of the sequence ...
F H, van Batenburg +2 more
openaire +2 more sources
An adaptive defect weighted sampling algorithm to design pseudoknotted RNA secondary structures
Frontiers in Genetics, 2016 Computational design of RNA sequences that fold into targeted secondary structures hasmany applications in biomedicine, nanotechnology and synthetic biology.
Kasra Zandi +3 more
doaj +1 more source