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» Combinatorics of RNA Secondary Structures
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SODA
2007
ACM
76views Algorithms» more  SODA 2007»
13 years 9 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...
BIB
2011
13 years 2 months ago
Mutational analysis in RNAs: comparing programs for RNA deleterious mutation prediction
Programs for RNA mutational analysis that are structure-based and rely on secondary structure prediction have been developed and expanded in the past several years. They can be us...
Danny Barash, Alexander Churkin
TCBB
2011
13 years 2 months ago
Semantics and Ambiguity of Stochastic RNA Family Models
Stochastic models such as hidden Markov models or stochastic context free grammars can fail to return the correct, maximum likelihood solution in the case of semantic ambiguity. T...
Robert Giegerich, Christian Höner zu Siederdi...
JUCS
2006
141views more  JUCS 2006»
13 years 7 months ago
Constraint Based Methods for Biological Sequence Analysis
: The need for processing biological information is rapidly growing, owing to the masses of new information in digital form being produced at this time. Old methodologies for proce...
Maryam Bavarian, Verónica Dahl
BMCBI
2005
115views more  BMCBI 2005»
13 years 7 months ago
Graphical representation of ribosomal RNA probe accessibility data using ARB software package
Background: Taxon specific hybridization probes in combination with a variety of commonly used hybridization formats nowadays are standard tools in microbial identification. A fre...
Yadhu Kumar, Ralf Westram, Sebastian Behrens, Bern...