McGenus: A Monte Carlo algorithm to predict RNA secondary structures with pseudoknots [PDF]
, 2012 We present McGenus, an algorithm to predict RNA secondary structures with pseudoknots. The method is based on a classification of RNA structures according to their topological genus.
Andronescu +26 more
core +3 more sources
FEBS Letters, EarlyView.In this study, we present the structure of AcrIE8.1, a previously uncharacterized anti‐CRISPR protein that inhibits the type I‐E CRISPR‐Cas system. Through a combination of structural and biochemical analyses, we demonstrate that AcrIE8.1 directly binds to the Cas11 subunit of the Cascade complex to inhibit the CRISPR‐Cas system.
Young Woo Kang, Hyun Ho Park
wiley +1 more source
RNA Interference by Single- and Double-stranded siRNA With a DNA Extension Containing a 3′ Nuclease-resistant Mini-hairpin Structure [PDF]
, 2013 Selective gene silencing by RNA interference (RNAi) involves double-stranded small interfering RNA (ds siRNA) composed of single-stranded (ss) guide and passenger RNAs.
Ahmed +38 more
core +6 more sources
The Prediction of Tertiary Structure of RNA Based upon Secondary Structure by Using the Relaxation Method and Texture Mapping Method [PDF]
Journal of Systemics, Cybernetics and Informatics, 2013 In this paper, we propose a method to predict tertiary structure of an RNA sequence. Our prediction method would first find the secondary structure of the given RNA sequence.
C.C. Lin, R.C.T. Lee
doaj
RNAvigator: A Pipeline to Identify Candidates for Functional RNA Structure Elements
Frontiers in Virology, 2022 Identifying structural elements in long and complex RNAs, such as long non-coding and RNA viruses, can shed light on the functionality and mechanisms of such RNAs.
Riccardo Delli Ponti +3 more
doaj +1 more source
Parametrized Stochastic Grammars for RNA Secondary Structure Prediction
, 2007 We propose a two-level stochastic context-free grammar (SCFG) architecture for parametrized stochastic modeling of a family of RNA sequences, including their secondary structure.
Maier, Robert S.
core +2 more sources
An intracellular transporter mitigates the CO2‐induced decline in iron content in Arabidopsis shoots
FEBS Letters, EarlyView.This study identifies a gene encoding a transmembrane protein, MIC, which contributes to the reduction of shoot Fe content observed in plants under elevated CO2. MIC is a putative Fe transporter localized to the Golgi and endosomal compartments. Its post‐translational regulation in roots may represent a potential target for improving plant nutrition ...
Timothy Mozzanino +7 more
wiley +1 more source
Mapping RNA–RNA interactome and RNA structure in vivo by MARIO
Nature Communications, 2016 Current methods for mapping RNA-RNA interactions have to rely on an ‘anchor’ protein or RNA. Here, the authors report the MARIO (Mapping RNA interactome in vivo) technology that can massively reveal RNA-RNA interactions and RNA structure from unperturbed
Tri C. Nguyen +9 more
doaj +1 more source
RNA Motifs and Modification Involve in RNA Long-Distance Transport in Plants
Frontiers in Cell and Developmental Biology, 2021 A large number of RNA molecules have been found in the phloem of higher plants, and they can be transported to distant organelles through the phloem.
Tao Wang +10 more
doaj +1 more source
Phosphatidylinositol 4‐kinase as a target of pathogens—friend or foe?
FEBS Letters, EarlyView.This graphical summary illustrates the roles of phosphatidylinositol 4‐kinases (PI4Ks). PI4Ks regulate key cellular processes and can be hijacked by pathogens, such as viruses, bacteria and parasites, to support their intracellular replication. Their dual role as essential host enzymes and pathogen cofactors makes them promising drug targets.
Ana C. Mendes +3 more
wiley +1 more source