Mfold

swMATH12672MaRDI QIDQ24598FDOQ24598

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Official website: http://nar.oxfordjournals.org/content/31/13/3406

Cited In (61)

• Sparse RNA folding: time and space efficient algorithms
• Nondeterministic seedless oritatami systems and hardness of testing their equivalence
• Cofolga: a genetic algorithm for finding the common folding of two RNAs
• Possible multiple origins of replication in primate mitochondria: alternative role of tRNA sequences
• Parametric analysis of RNA branching configurations
• Dynamic extended folding: modeling the RNA secondary structures during co-transcriptional folding
• A fuzzy model of predicting RNA secondary structure
• Combinatorics of locally optimal RNA secondary structures
• RNA secondary structures in a polymer-zeta model how foldings should be shaped for sparsification to establish a linear speedup
• Symmetric time warping, Boltzmann pair probabilities and functional genomics
• On topological indices for small RNA graphs
• Detecting conserved secondary structures in RNA molecules using constrained structural alignment
• In silico analysis of EST and genomic sequences allowed the prediction of cis-regulatory elements for Entamoeba histolytica mRNA polyadenylation
• Computational identification of novel microRNA homologs in the chimpanzee genome
• Computational identification of 48 potato microRNAs and their targets
• On the structure of RNA branching polytopes
• A grammatical approach to RNA-RNA interaction prediction
• RNA bioinformatics
• Computational identification of microRNAs and their targets
• HBV-encoded microRNA candidate and its target
• Importance of RNA secondary structure information for yeast donor and acceptor splice site predictions by neural networks
• The end-to-end distance of RNA as a randomly self-paired polymer
• On conflict free DNA codes
• Rfam
• Unified approach to partition functions of RNA secondary structures
• GenRGenS
• RNAsoft
• CentroidAlign
• CONTRAfold
• ModeRNA
• RNAexinv
• RNAfbinv
• RNAalifold
• R4RNA
• R2R
• RILogo
• RNA2D3D
• RNAplex
• RSeQC
• SeqMap
• Overlapping genes coded in the 3'-to-5'-direction in mitochondrial genes and 3'-to-5' polymerization of non-complementary RNA by an `invertase'
• CONCORD
• iHOP
• RNAlign
• Ruleset optimization on isomorphic oritatami systems
• Expected distance between terminal nucleotides of RNA secondary structures
• Asymptotic number of hairpins of saturated RNA secondary structures
• EST-PAGE
• DINAMelt
• OligoArray
• The ambush hypothesis at the whole-organism level: off frame, `hidden' stops in vertebrate mitochondrial genes increase developmental stability
• Large deviations for random trees and the branching of RNA secondary structures
• Sparse RNA Folding: Time and Space Efficient Algorithms
• Regulatory Signals in Genomic Sequences
• On the page number of RNA secondary structures with pseudoknots
• Boltzmann ensemble features of RNA secondary structures: a comparative analysis of biological RNA sequences and random shuffles
• Computational methods in noncoding RNA research
• Introduction to special issue on RNA
• Systematic discovery of the grammar of translational inhibition by RNA hairpins
• RNA secondary structures with given motif specification: combinatorics and algorithms
• Information-theoretic uncertainty of SCFG-modeled folding space of the non-coding RNA

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