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» Alignments of RNA Structures
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BMCBI
2010
154views more  BMCBI 2010»
13 years 7 months ago
Fine-tuning structural RNA alignments in the twilight zone
Background: A widely used method to find conserved secondary structure in RNA is to first construct a multiple sequence alignment, and then fold the alignment, optimizing a score ...
Andreas Bremges, Stefanie Schirmer, Robert Giegeri...
RECOMB
2006
Springer
14 years 8 months ago
Structural Alignment of Pseudoknotted RNA
In this paper, we address the problem of discovering novel non-coding RNA (ncRNA) using primary sequence, and secondary structure conservation, focusing on ncRNA families with pseu...
Banu Dost, Buhm Han, Shaojie Zhang, Vineet Bafna
ICASSP
2011
IEEE
12 years 11 months ago
Iterative estimation of structures of multiple RNA homologs: Turbofold
TurboFold, an iterative algorithm for estimating the common secondary structures of multiple RNA homologs, is presented. The algorithm is motivated by and has structure and attrib...
Gaurav Sharma, Arif Ozgun Harmanci, David H. Mathe...
ISAAC
2004
Springer
114views Algorithms» more  ISAAC 2004»
14 years 29 days ago
Structural Alignment of Two RNA Sequences with Lagrangian Relaxation
RNA is generally a single-stranded molecule where the bases form hydrogen bonds within the same molecule leading to structure formation. In comparing different homologous RNA mole...
Markus Bauer, Gunnar W. Klau
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