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Russell L. Malmberg 的引文(58) 排序方式:
Memory Efficient Algorithms for Structural Alignment of RNAs with Pseudoknots  
In this paper, we consider the problem of structural alignment of a target RNA sequence of length n and a query RNA sequence of length m with known secondary structure that may contain simple pseudokn......
IEEE/ACM Transactions on Computational Biology and Bioinformatics  2012
4次引用 0 0
On the Page Number of Secondary Structures with Pseudoknots  
Let S denote the set of (possibly noncanonical) base pairs {i, j} of an RNA tertiary structure; i.e. {i, j} ∈ S if there is a hydrogen bond between the ith and jth nucleotide. The page number of S, d......
 2011
0次引用 0 0
Topology and prediction of RNA pseudoknots  
Motivation: Several dynamic programming algorithms for predicting RNA structures with pseudoknots have been proposed that differ dramatically from one another in the classes of structures considered. ......
Bioinformatics/computer Applications in The Biosciences  2011
0次引用 0 0
Reflections on Multivariate Algorithmics and . . .  
Research on parameterized algorithmics for NP-hard problems has steadily grown over the last years. We survey and discuss how parameterized complexity analysis naturally develops into the field of mul......
 2010
0次引用 0 0
Infernal 1.0: inference of RNA alignments  
Summary: INFERNAL builds consensus RNA secondary structure profiles called covariance models (CMs), and uses them to search nucleic acid sequence databases for homologous RNAs, or to create new sequen......
Bioinformatics/computer Applications in The Biosciences  2009
13次引用 0 0
RNATOPS-W: a web server for RNA structure searches of genomes  
Bioinformatics/computer Applications in The Biosciences  2009
0次引用 0 0
A Discrete Hopfield Neural Network Based MIS Finding Algorithm for Stems Selecting and Its Application in RNA Secondary Structure Prediction: A Discrete Hopfield Neural Network Based MIS Finding Algorithm for Stems Selecting and Its Application in RNA Secondary Structure Prediction  
Chinese Journal of Computers  2009
0次引用 0 0
Prediction of RNA secondary structure with pseudoknots using integer programming  
BACKGROUND: RNA secondary structure prediction is one major task in bioinformatics, and various computational methods have been proposed so far. Pseudoknot is one of the typical substructures appearin......
BMC Bioinformatics  2009
0次引用 0 0
On the parameterized complexity of multiple-interval graph problems  
Abstract. Multiple-interval graphs are a natural generalization of interval graphs where each ver- tex may,have more than one interval associated with it. Many applications of interval graphs also gen......
Theoretical Computer Science  2009
16次引用 0 0
Fast and accurate search for non-coding RNA pseudoknot structures in genomes  
Motivation: Searching genomes for non-coding RNAs (ncRNAs) by their secondary structure has become an important goal for bioinformatics. For pseudoknot-free structures, ncRNA search can be effective b......
Bioinformatics/computer Applications in The Biosciences  2008
3次引用 0 0

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