Results 31 to 40 of about 4,926,306 (277)
RNA folding landscapes from explicit solvent all-atom simulations [PDF]
arXiv, 2022 Atomically detailed simulations of RNA folding have proven very challenging in view of the difficulties of developing realistic force fields and the intrinsic computational complexity of sampling rare conformational transitions. To tackle both these issues, we extend to RNA an enhanced path sampling method previously successfully applied to proteins ...
arxiv
Recognition of Cognate Transfer RNA by the 30S Ribosomal Subunit
Science, 2001 Crystal structures of the 30S ribosomal subunit in complex with messenger RNA and cognate transfer RNA in the A site, both in the presence and absence of the antibiotic paromomycin, have been solved at between 3.1 and 3.3 angstroms resolution.
J. M. Ogle +5 more
semanticscholar +1 more source
Using Guided Transfer Learning to Predispose AI Agent to Learn Efficiently from Small RNA-sequencing Datasets [PDF]
arXiv, 2023 Given the increasing availability of RNA-seq data and its complex and heterogeneous nature, there has been growing interest in applying AI/machine learning methodologies to work with such data modalities. However, because omics data is characterized by high dimensionality and low sample size (HDLSS), current attempts at integrating AI in this domain ...
arxiv
Combining simulations and solution experiments as a paradigm for RNA force field refinement [PDF]
J. Chem. Theory Comput., 2016, 12 (12), pp 6192-6200, 2016 Recent computational efforts have shown that the current potential energy models used in molecular dynamics are not accurate enough to describe the conformational ensemble of RNA oligomers and suggest that molecular dynamics should be complemented with experimental data.
arxiv +1 more source
Small RNAs and extracellular vesicles in filarial nematodes: from nematode development to diagnostics [PDF]
, 2016 Parasitic nematodes have evolved sophisticated mechanisms to communicate with their hosts in order to survive and successfully establish an infection. The transfer of RNA within extracellular vesicles (EVs) has recently been described as a mechanism that
Babayan, S.A. +2 more
core +2 more sources
7-Methylguanosine Modifications in Transfer RNA (tRNA)
International Journal of Molecular Sciences, 2018 More than 90 different modified nucleosides have been identified in tRNA. Among the tRNA modifications, the 7-methylguanosine (m7G) modification is found widely in eubacteria, eukaryotes, and a few archaea.
Chie Tomikawa
semanticscholar +1 more source
Machine learning a model for RNA structure prediction [PDF]
NAR Genom. Bioinform. 2, lqaa090 (2020), 2020 RNA function crucially depends on its structure. Thermodynamic models currently used for secondary structure prediction rely on computing the partition function of folding ensembles, and can thus estimate minimum free-energy structures and ensemble populations.
arxiv +1 more source
Neuro-Oncology, 2016 BACKGROUND To understand the ability of gliomas to manipulate their microenvironment, we visualized the transfer of vesicles and the effects of tumor-released extracellular RNA on the phenotype of microglia in culture and in vivo. METHODS Extracellular
K. E. van der Vos +15 more
semanticscholar +1 more source
Platelets and tumor-associated RNA transfer.
Blood, 2021 Until recently the nucleic acid content of platelets was considered to be fully determined by their progenitor megakaryocyte. However, it is now well understood that additional mediators (e.g.
Silvia D’Ambrosi +2 more
semanticscholar +1 more source
PtRFdb: a database for plant transfer RNA-derived fragments
Database J. Biol. Databases Curation, 2018 Transfer RNA-derived fragments (tRFs) represent a novel class of small RNAs (sRNAs) generated through endonucleolytic cleavage of both mature and precursor transfer RNAs (tRNAs).
N. Gupta +3 more
semanticscholar +1 more source