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» Combinatorics of RNA Secondary Structures
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RECOMB
1998
Springer
13 years 11 months ago
A polyhedral approach to RNA sequence structure alignment
Ribonucleic acid (RNA) is a polymer composed of four bases denoted A, C, G, and U. It is a generally single-stranded molecule where the bases form hydrogen bonds within the same m...
Hans-Peter Lenhof, Knut Reinert, Martin Vingron
BMCBI
2011
12 years 11 months ago
Structator: fast index-based search for RNA sequence-structure patterns
Background: The secondary structure of RNA molecules is intimately related to their function and often more conserved than the sequence. Hence, the important task of searching dat...
Fernando Meyer, Stefan Kurtz, Rolf Backofen, Sebas...
COMPLIFE
2005
Springer
14 years 1 months ago
Fast and Accurate Structural RNA Alignment by Progressive Lagrangian Optimization
During the last few years new functionalities of RNA have been discovered, renewing the need for computational tools for their analysis. To this respect, multiple sequence alignmen...
Markus Bauer, Gunnar W. Klau, Knut Reinert
ISAAC
2005
Springer
120views Algorithms» more  ISAAC 2005»
14 years 29 days ago
Improved Algorithms for Largest Cardinality 2-Interval Pattern Problem
Abstract The 2-Interval Pattern problem is to find the largest constrained pattern in a set of 2-intervals. The constrained pattern is a subset of the given 2-intervals such that ...
Hao Yuan, Linji Yang, Erdong Chen
RECOMB
2005
Springer
14 years 7 months ago
RNA-RNA Interaction Prediction and Antisense RNA Target Search
Abstract. Recent studies demonstrating the existence of special non-coding "antisense" RNAs used in post-transcriptional gene regulation have received considerable attent...
Can Alkan, Emre Karakoç, Joseph H. Nadeau, ...