Keywords: ساختار ثانویه RNA; Particle swarm optimization; Minimum free energy; Hydrogen bond model; Nearest neighbor database; Combinatorial optimization; RNA secondary structure
مقالات ISI ساختار ثانویه RNA (ترجمه نشده)
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A method to improve prediction of secondary structure for large single RNA sequences
Keywords: ساختار ثانویه RNA; RNA; RNA secondary structure; Large single RNA; Kinetic folding; Bioinformatics; Computational biology;
Adventures with RNA graphs
Keywords: ساختار ثانویه RNA; RNA structure; Graphs; Coarse-grained modeling; RNA secondary structure; Mathematical biology; RNA design;
Recent advances in RNA folding
Keywords: ساختار ثانویه RNA; RNA secondary structure; RNA constraint folding; RNA interactions; RNA secondary structure comparison; RNA analysis;
A combined sequence and structure based method for discovering enriched motifs in RNA from in vivo binding data
Keywords: ساختار ثانویه RNA; RNA binding proteins; RNA sequence and structure motifs; RNA secondary structure; Motif enrichment; Computational ranked based approach; CLIP-seq; SMARTIV;
Consensus RNA Secondary Structure Prediction Based on Support Vector Machine Classification
Keywords: ساختار ثانویه RNA; comparative sequences analysis; RNA secondary structure; support vector machine; similarity weight factor;
RNAcompete-S: Combined RNA sequence/structure preferences for RNA binding proteins derived from a single-step in vitro selection
Keywords: ساختار ثانویه RNA; RNA-binding protein; Motif scanning; RNA secondary structure; Motif discovery; High-throughput sequencing; In vitro selection;
Multi-objective two-level swarm intelligence approach for multiple RNA sequence-structure alignment
Keywords: ساختار ثانویه RNA; Multi-objective optimization; RNA secondary structure; Multiple sequence alignment; Particle swarm optimization; Non-dominated solutions; Pareto optimal solution; Minimum free energy; Conflicting objectives;
Search for 5â²-leader regulatory RNA structures based on gene annotation aided by the RiboGap database
Keywords: ساختار ثانویه RNA; ncRNA; Bioinformatics; GraphClust; Infernal; Rfam; RNA secondary structure; Riboswitch; Methyltransferase; TRAP; CsrA; RsmA;
RNA Regulations and Functions Decoded by Transcriptome-wide RNA Structure Probing
Keywords: ساختار ثانویه RNA; RNA structure probing; RNA structurome; RNA secondary structure; Structure-function relationship; RNA regulation;
Comparative analysis of variation and selection in the HCV genome
Keywords: ساختار ثانویه RNA; HCV; Genome; Selection; RNA secondary structure; Epitope;
Using temperature effects to predict the interactions between two RNAs
Keywords: ساختار ثانویه RNA; RNA-RNA interaction; RNA secondary structure; Minimum free energy;
Computational analysis of RNA structures with chemical probing data
Keywords: ساختار ثانویه RNA; RNA secondary structure; RNA tertiary structure; chemical probing; parallel sequencing
Bioinformatics of cardiovascular miRNA biology
Keywords: ساختار ثانویه RNA; MiRNAs; Multiple sequence alignment; RNA secondary structure; Database; Omics; Heart;
SHAPE analysis of the RNA secondary structure of the Mouse Hepatitis Virus 5' untranslated region and N-terminal nsp1 coding sequences
Keywords: ساختار ثانویه RNA; Mouse Hepatitis Virus; Murine coronavirus; Betacoronavirus; RNA secondary structure; SHAPE analysis; 5â² cis-acting region;
The structure and functions of coronavirus genomic 3â² and 5â² ends
Keywords: ساختار ثانویه RNA; Coronaviruses; RNA secondary structure; cis-Acting sequences; Virus replication; RNA binding proteins;
RNA secondary structure prediction based on SHAPE data in helix regions
Keywords: ساختار ثانویه RNA; Minimum free energy; RNA secondary structure; SHAPE data;
A semi-supervised learning approach for RNA secondary structure prediction
Keywords: ساختار ثانویه RNA; 00-01; 99-00; RNA secondary structure; Semi-supervised learning; Parameter learning;
Sub-genomic RNA of defective interfering (D.I.) dengue viral particles is replicated in the same manner as full length genomes
Keywords: ساختار ثانویه RNA; Dengue virus; Defective interfering particles; Replication; RNA secondary structure; Disease attenuation;
The structural and phylogenetic profile of the 3′ terminus of coxsackievirus B3 negative strand
Keywords: ساختار ثانویه RNA; CV-B3, coxsackievirus B3; UTR, untranslated region; DMS, dimethyl sulfate; PV-1, poliovirus type 1; HCV, hepatitis C virusCoxsackievirus B3; Cloverleaf; RNA secondary structure; RNA structure probing; Negative-strand RNA; Negative viral strand
A circular order on edge-coloured trees and RNA m-diagrams
Keywords: ساختار ثانویه RNA; primary, 05C05, 05A15; secondary, 37B10Tree; Edge-coloured; Labelled triangulation; Fuss–Catalan number; Enumeration; Tree of relations; RNA secondary structure; Polygon; m-Angulation; Induction; Interval exchange transformation; RNA m-diagram
Genomic era analyses of RNA secondary structure and RNA-binding proteins reveal their significance to post-transcriptional regulation in plants
Keywords: ساختار ثانویه RNA; dsRNase; double-stranded RNase; ssRNase; single-stranded RNase; miRNA; microRNA; PIP-seq; protein interaction profile sequencing; siRNA; small interfering RNA; PARS; parallel analysis of RNA structure; RNA secondary structure; RNA-binding proteins; Post-t
Functional analysis of the stem loop S3 and S4 structures in the coronavirus 3â²UTR
Keywords: ساختار ثانویه RNA; Coronavirus; Cis-acting elements; 3â²UTR; RNA secondary structure; MHV; Mutation; Reverse genetics;
Generation of RNA pseudoknot structures with topological genus filtration
Keywords: ساختار ثانویه RNA; RNA secondary structure; RNA pseudoknot structure; Topological surface; Topological genus; Partition function; Sampling;
Targeting long non-coding RNAs in cancers: Progress and prospects
Keywords: ساختار ثانویه RNA; ANRIL; antisense non-coding RNA in the INK4 locus; ATRA; all-trans retinoic acid; ASO; antisense oligonucleotide; CRC; colorectal carcinoma; CREB; cAMP-responsive element binding protein; DM1; myotonic dystrophy type 1; DsRNA; double-stranded RNA; EMT; ep
RNA structure and dynamics: A base pairing perspective
Keywords: ساختار ثانویه RNA; Non-canonical base pair; RNA secondary structure; Structural characterization of non-canonical base pairs; Detection of non-canonical base pairs;
Identification, molecular characterization, and evolution of group I introns at the expansion segment D11 of 28S rDNA in Rhizoctonia species
Keywords: ساختار ثانویه RNA; Anamorph; LSU rDNA; Phytopathogenic fungi; RNA secondary structure; Thanatephorus;
Information-theoretic uncertainty of SCFG-modeled folding space of the non-coding RNA
Keywords: ساختار ثانویه RNA; RNA secondary structure; Stochastic context-free grammars; Structural entropy; Riboswitch; Structural ambiguity
On topological indices for small RNA graphs
Keywords: ساختار ثانویه RNA; RNA secondary structure; RNA graph representation; Laplacian eigenvalues; Small RNA graphs
A heuristic approach to RNA–RNA interaction prediction
Keywords: ساختار ثانویه RNA; RNA secondary structure; Minimum free energy
Identification of the HIV-1 packaging RNA sequence (Ψ) as a major determinant for the translation inhibition conferred by the HIV-1 5′ UTR
Keywords: ساختار ثانویه RNA; HIV-1 5′ UTR; RNA secondary structure; Psi (Ψ); Translation inhibition
Molecular phylogenetics of Oestroidea (Diptera: Calyptratae) with emphasis on Calliphoridae: Insights into the inter-familial relationships and additional evidence for paraphyly among blowflies
Keywords: ساختار ثانویه RNA; Oestroidea; Calliphoridae; Mesembrinellinae; Data partitioning strategies; RNA secondary structure;
Comparative structural studies of bovine viral diarrhea virus IRES RNA
Keywords: ساختار ثانویه RNA; BVDV; IRES RNA; Comparative Sequence Analysis; RNA secondary structure; RNA model;
Drosha processing controls the specificity and efficiency of global microRNA expression
Keywords: ساختار ثانویه RNA; miRNA, microRNA; pri-miRNA, primary microRNA transcriptmiRNA; Pri-miRNA processing; Drosha; miRNA expression; RNA secondary structure
Motif frequency and evolutionary search times in RNA populations
Keywords: ساختار ثانویه RNA; Genotype–phenotype map; RNA secondary structure; RNA world
In vivo generated Citrus exocortis viroid progeny variants display a range of phenotypes with altered levels of replication, systemic accumulation and pathogenicity
Keywords: ساختار ثانویه RNA; Viroid RNA evolution; Population composition; Genomic diversity; Infectivity; RNA secondary structure; Citrus protoplasts; ‘Etrog’ citron; Gynura; Chrysanthemum
Combinatorial analysis of interacting RNA molecules
Keywords: ساختار ثانویه RNA; RNA-RNA interaction; Joint structure; Shape; Symbolic enumeration; Singularity analysis; RNA secondary structure;
A folding “framework structure” of Tetrahymena group I intron
Keywords: ساختار ثانویه RNA; Ribozyme; Splice site; Dynamic extended folding; RNA secondary structure
Parallelization and optimization of Mfold on shared memory system
Keywords: ساختار ثانویه RNA; RNA secondary structure; Mfold; Parallelization; Optimization; MPI; Shared memory system
Structural plasticity of Barley yellow dwarf virus-like cap-independent translation elements in four genera of plant viral RNAs
Keywords: ساختار ثانویه RNA; RNA secondary structure; Cap-independent translation; Luteovirus; Umbravirus; Necrovirus; Dianthovirus; Selective 2′-hydroxyl acylation and primer extension; GNRNA pentaloop; 3′ Untranslated region
Evolutionary inferences based on ITS rDNA and actin sequences reveal extensive diversity of the common lichen alga Asterochloris (Trebouxiophyceae, Chlorophyta)
Keywords: ساختار ثانویه RNA; Actin; Asterochloris; Complementary base changes (CBC); Cryptic diversity; Doublet model; ITS rDNA; Lichen photobionts; Likelihood mapping; RNA secondary structure; Substitutional saturation; Taxonomy; Trebouxiophyceae
RNA pseudoknot structures with arc-length ≥3≥3 and stack-length ≥σ≥σ
Keywords: ساختار ثانویه RNA; RNA secondary structure; Pseudoknot; Enumeration; Generating function
Group-specific structural features of the 5â²-proximal sequences of coronavirus genomic RNAs
Keywords: ساختار ثانویه RNA; Coronavirus; SARS-CoV; RNA secondary structure; Packaging signal; 5â² Untranslated region;
Non-synonymous gene polymorphisms in the secretory signal peptide of human TGF-β1 affect cellular synthesis but not secretion of TGF-β1
Keywords: ساختار ثانویه RNA; TGF-β1; Cytokine; Cellular secretion; Gene polymorphism; RNA secondary structure; Transfection; Hepatic fibrogenesis; LX-2; CHO; Fibrosis
Computational modeling analyses of RNA secondary structures and phylogenetic inference of evolutionary conserved 5S rRNA in the prokaryotes
Keywords: ساختار ثانویه RNA; Bacteria; 5S rRNA; Phylogeny; RNA secondary structure; Free energy; Evolution
Fine mapping of interactions between eEF1α protein and 3â²UTR of metallothionein-1 mRNA
Keywords: ساختار ثانویه RNA; Metallothionein-1; Perinuclear mRNA localisation; 3â²Untranslated region; Elongation factor 1α; RNA binding protein; RNA secondary structure; Histidine-tRNA ligase;
RNA secondary structure, permutations, and statistics
Keywords: ساختار ثانویه RNA; RNA secondary structure; Combinatorial statistics; Permutations; Pattern avoidance
Clinical relevance of the 2â²-5â²-oligoadenylate synthetase/RNase L system for treatment response in chronic hepatitis C
Keywords: ساختار ثانویه RNA; HCV; hepatitis C virus; IFN-α; interferon-α; 2â²-5â²-OAS; 2â²-5â²-oligoadenylate synthetase; SR; sustained virologic response: negative HCV RNA at the end of treatment and 24 weeks thereafter; ETR; end of treatment response:negative HCV RNA at t
Bridging IRES elements in mRNAs to the eukaryotic translation apparatus
Keywords: ساختار ثانویه RNA; Internal ribosome entry site (IRES); Cap-independent translation; Eukaryotic translation; IRES trans-acting factor (ITAF); RNA secondary structure;
The 5′UTR-specific mutation in VEEV TC-83 genome has a strong effect on RNA replication and subgenomic RNA synthesis, but not on translation of the encoded proteins
Keywords: ساختار ثانویه RNA; Alphavirus; 5′UTR; Attenuating mutation; RNA secondary structure; NMR; Virus replication; RNA synthesis