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» Segment-based multiple sequence alignment
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WABI
2005
Springer
120views Bioinformatics» more  WABI 2005»
15 years 3 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
BMCBI
2010
106views more  BMCBI 2010»
14 years 10 months ago
Multiple structure alignment and consensus identification for proteins
Background: An algorithm is presented to compute a multiple structure alignment for a set of proteins and to generate a consensus (pseudo) protein which captures common substructu...
Ivaylo Ilinkin, Jieping Ye, Ravi Janardan
NAR
2006
119views more  NAR 2006»
14 years 9 months ago
HHsenser: exhaustive transitive profile search using HMM-HMM comparison
HHsenser is the first server to offer exhaustive intermediate profile searches, which it combines with pairwise comparison of hidden Markov models. Starting from a single protein ...
Johannes Söding, Michael Remmert, Andreas Bie...
BMCBI
2004
77views more  BMCBI 2004»
14 years 9 months ago
A structural study for the optimisation of functional motifs encoded in protein sequences
Background: A large number of PROSITE patterns select false positives and/or miss known true positives. It is possible that
Allegra Via, Manuela Helmer-Citterich
RECOMB
2004
Springer
15 years 10 months ago
Multiple organism gene finding by collapsed gibbs sampling
The Gibbs sampling method has been widely used for sequence analysis after it was successfully applied to the problem of identifying regulatory motif sequences upstream of genes. ...
Sourav Chatterji, Lior Pachter