Results 41 to 50 of about 1,301,283 (332)
Structural Alignment of Pseudoknotted RNA [PDF]
Journal of Computational Biology, 2006 In this paper, we address the problem of discovering novel non-coding RNA (ncRNA) using primary sequence, and secondary structure conservation, focusing on ncRNA families with pseudoknotted structures. Our main technical result is an efficient algorithm for computing an optimum structural alignment of an RNA sequence against a genomic substring.
Han, Buhm +3 more
openaire +5 more sources
RNA 3D Modules in Genome-Wide Predictions of RNA 2D Structure. [PDF]
PLoS ONE, 2015 Recent experimental and computational progress has revealed a large potential for RNA structure in the genome. This has been driven by computational strategies that exploit multiple genomes of related organisms to identify common sequences and secondary ...
Corinna Theis +6 more
doaj +1 more source
Interpretable RNA Foundation Model from Unannotated Data for Highly Accurate RNA Structure and Function Predictions [PDF]
arXiv, 2022 Non-coding RNA structure and function are essential to understanding various biological processes, such as cell signaling, gene expression, and post-transcriptional regulations. These are all among the core problems in the RNA field. With the rapid growth of sequencing technology, we have accumulated a massive amount of unannotated RNA sequences.
arxiv
Structure of the RNA-dependent RNA polymerase of poliovirus [PDF]
Structure, 1997 The central player in the replication of RNA viruses is the viral RNA-dependent RNA polymerase. The 53 kDa poliovirus polymerase, together with other viral and possibly host proteins, carries out viral RNA replication in the host cell cytoplasm. RNA-dependent RNA polymerases comprise a distinct category of polymerases that have limited sequence ...
Alexander M Long +2 more
openaire +3 more sources
Cotranscriptional kinetic folding of RNA secondary structures including pseudoknots [PDF]
Journal of Computational Biology, 2021, 2020 Computational prediction of RNA structures is an important problem in computational structural biology. Studies of RNA structure formation often assume that the process starts from a fully synthesized sequence. Experimental evidence, however, has shown that RNA folds concurrently with its elongation.
arxiv +1 more source
RNA Thermodynamic Structural Entropy
PLOS ONE, 2015 Conformational entropy for atomic-level, three dimensional biomolecules is known experimentally to play an important role in protein-ligand discrimination, yet reliable computation of entropy remains a difficult problem. Here we describe the first two accurate and efficient algorithms to compute the conformational entropy for RNA secondary structures ...
Juan Antonio Garcia-Martin, Peter Clote
openaire +6 more sources
Shapes of RNA Pseudoknot Structures [PDF]
Journal of Computational Biology, 2010 24 pages, 7 figures,
Christian M. Reidys, Rita R. Wang
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FEBS Letters, EarlyView.Metabolic dysfunction‐associated steatotic liver disease (MASLD) affects nearly one‐third of the global population and poses a significant risk of progression to cirrhosis or liver cancer. Here, we discuss the roles of hepatic dendritic cell subtypes in MASLD, highlighting their distinct contributions to disease initiation and progression, and their ...
Camilla Klaimi +3 more
wiley +1 more source
The messenger: the structure of RNA [PDF]
Biochemical Journal, 2006 In the early part of the 20th Century, the nature of nucleic acid and what its role was within the cell were a bit of a mystery. DNA itself was first isolated as far back as 1869 by the Swiss chemist Johann Friedrich Miescher. He separated nuclei from the cytoplasm of cells and then isolated an acidic substance from these nuclei that he called nuclein1.
openaire +2 more sources
RNA secondary structure design [PDF]
Physical Review E, 2007 11 pages, 10 ...
Burghardt, Bernd, Hartmann, Alexander K.
openaire +5 more sources