Algorithms for Loop Matchings
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(42)- Approximation of RNA multiple structural alignment
- Predicting RNA secondary structures with pseudoknots by MCMC sampling
- Dynamic linear model for the identification of miRNAs in next-generation sequencing data
- Generic properties of combinatory maps: Neutral networks of RNA secondary structures
- Generation of RNA pseudoknot structures with topological genus filtration
- Speeding up the dynamic algorithm for planar RNA folding
- Rapid ab initio prediction of RNA pseudoknots via graph tree decomposition
- New approximation algorithms for RNA secondary structures prediction problems by local search
- A new method for prediction of RNA secondary structure with pseudoknots, based on helix removal and refinement
- A Faster Algorithm for Maximum Induced Matchings on Circle Graphs
- On RNA-RNA interaction structures of fixed topological genus
- The Bounded and Precise Word Problems for Presentations of Groups
- RNA secondary structures and their prediction
- Fine-grained parallel RNA secondary structure prediction using SCFGs on FPGA
- A circular order on edge-coloured trees and RNA \(m\)-diagrams
- A fuzzy model of predicting RNA secondary structure
- A sparsified Four-Russian algorithm for RNA folding
- On topological indices for small RNA graphs
- A maximum weight clique algorithm for dense circle graphs with many shared endpoints
- A parallel algorithm for estimating the secondary structure in ribonucleic acids
- An RNA secondary structure prediction method based on minimum and suboptimal free energy structures
- A grammatical approach to RNA-RNA interaction prediction
- On the structure of RNA branching polytopes
- Prediction and statistics of pseudoknots in RNA structures using exactly clustered stochastic simulations
- Chance and necessity in evolution: lessons from RNA
- Secondary structure ensemble analysis via community detection
- Modeling RNA secondary structures. I: Mathematical structural model for predicting RNA secondary structures
- Combinatorics of RNA secondary structures
- Topological language for RNA
- RNA multiple structural alignment with longest common subsequences
- Modeling dynamic programming problems over sequences and trees with inverse coupled rewrite systems
- Effects of secondary structures in RNA on interlocking probabilities
- Watson-Crick pairing, the Heisenberg group and Milnor invariants
- Rapid dynamic programming algorithms for RNA secondary structure
- A computational model for RNA multiple structural alignment
- Symmetric circular matchings and RNA folding
- Computational methods in noncoding RNA research
- Applying length-dependent stochastic context-free grammars to RNA secondary structure prediction
- Random k-noncrossing RNA structures
- GMFOLD: subgraph matching for high-throughput DNA-aptamer secondary structure classification and machine learning interpretability
- A phase transition for the minimum free energy of secondary structures of a random RNA
- Fatgraph models of RNA structure
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