Results 11 to 20 of about 9,562,225 (293)
Sparsification of RNA structure prediction including pseudoknots [PDF]
Algorithms for Molecular Biology, 2010 Background Although many RNA molecules contain pseudoknots, computational prediction of pseudoknotted RNA structure is still in its infancy due to high running time and space consumption implied by the dynamic programming formulations of the problem ...
Backofen Rolf +4 more
doaj +11 more sources
On the significance of an RNA tertiary structure prediction [PDF]
RNA, 2010 Tertiary structure prediction is important for understanding structure–function relationships for RNAs whose structures are unknown and for characterizing RNA states recalcitrant to direct analysis. However, it is unknown what root-mean-square deviation (RMSD) corresponds to a statistically significant RNA tertiary structure prediction. We use discrete
Christine E, Hajdin +3 more
openaire +4 more sources
A comprehensive comparison of comparative RNA structure prediction approaches [PDF]
BMC Bioinformatics, 2004 Background An increasing number of researchers have released novel RNA structure analysis and prediction algorithms for comparative approaches to structure prediction. Yet, independent benchmarking of these algorithms is rarely performed as is now common
Giegerich Robert, Gardner Paul P
doaj +2 more sources
RNA Secondary Structure Prediction [PDF]
Current Protocols in Nucleic Acid Chemistry, 2000 AbstractDetails for predicting secondary structure of RNA sequences using free energy minimization are given. Protocols present the use of the RNAstructure computer program (for PCs) and the mfold server (for Unix platforms). The minimum free energy structure and a set of suboptimal structures with similar free energies are predicted.
Mathews, David H. +2 more
openaire +5 more sources
Prediction of RNA Secondary Structure [PDF]
Proceedings of the National Academy of Sciences, 1971 Calculations of the free energy required to close single-strand loops by formation of a base pair in double-helical nucleic acids are reported. These results can be used to estimate the free energy of particular secondary structures for a given RNA molecule under conditions of high-salt concentration.
C, Delisi, D M, Crothers
openaire +2 more sources
Characteristics and Prediction of RNA Structure [PDF]
BioMed Research International, 2014 RNA secondary structures with pseudoknots are often predicted by minimizing free energy, which is NP-hard. Most RNAs fold during transcription from DNA into RNA through a hierarchical pathway wherein secondary structures form prior to tertiary structures.
Li, Hengwu +4 more
openaire +2 more sources
Scientific Reports, 2023 The non-coding RNA secondary structure largely determines its function. Hence, accuracy in structure acquisition is of great importance. Currently, this acquisition primarily relies on various computational methods.
Qi Zhao +7 more
doaj +1 more source
Computational and Structural Biotechnology Journal, 2022 RNA secondary structures can carry out essential cellular functions alone or interact with one another to form the hierarchical tertiary structures.
Tzu-Hsien Yang +3 more
doaj +1 more source
smFRET-assisted RNA structure prediction. [PDF]
Commun Inf SystSingle-molecule Förster Resonance Energy Transfer (smFRET) is a powerful biophysical technique that utilizes the distance-dependent energy transfer between donor and acceptor dyes linked to individual molecules, providing insights into molecular conformational changes and interactions at the single-molecule level.
Li J, Walter NG, Chen SJ.
europepmc +3 more sources
trRosettaRNA: automated prediction of RNA 3D structure with transformer network
Nature Communications, 2023 RNA 3D structure prediction is a long-standing challenge. Inspired by the recent breakthrough in protein structure prediction, we developed trRosettaRNA, an automated deep learning-based approach to RNA 3D structure prediction.
Wenkai Wang +9 more
doaj +1 more source