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» RNA Sampler: a new sampling based algorithm for common RNA s...
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GCB
2008
Springer
174views Biometrics» more  GCB 2008»
13 years 7 months ago
Lightweight Comparison of RNAs based on Exact Sequence-structure Matches
: Specific functions of RNA molecules are often associated with different motifs in the RNA structure. The key feature that forms such an RNA motif is the combination of sequence ...
Steffen Heyne, Sebastian Will, Michael Beckstette,...
SODA
2007
ACM
76views Algorithms» more  SODA 2007»
13 years 7 months ago
An unbiased pointing operator for unlabeled structures, with applications to counting and sampling
We introduce a general method to count and randomly sample unlabeled combinatorial structures. The approach is based on pointing unlabeled structures in an “unbiased” way, i.e...
Manuel Bodirsky, Éric Fusy, Mihyun Kang, St...
COMPLIFE
2005
Springer
13 years 11 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
BMCBI
2008
244views more  BMCBI 2008»
13 years 6 months ago
RNAalifold: improved consensus structure prediction for RNA alignments
Background: The prediction of a consensus structure for a set of related RNAs is an important first step for subsequent analyses. RNAalifold, which computes the minimum energy str...
Stephan H. F. Bernhart, Ivo L. Hofacker, Sebastian...
WABI
2005
Springer
120views Bioinformatics» more  WABI 2005»
13 years 11 months ago
Multiple Structural RNA Alignment with Lagrangian Relaxation
In contrast to proteins, many classes of functionally related RNA molecules show a rather weak sequence conservation but instead a fairly well conserved secondary structure. Hence ...
Markus Bauer, Gunnar W. Klau, Knut Reinert