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BMCBI
2006
134views more  BMCBI 2006»
13 years 8 months ago
A statistical score for assessing the quality of multiple sequence alignments
Background: Multiple sequence alignment is the foundation of many important applications in bioinformatics that aim at detecting functionally important regions, predicting protein...
Virpi Ahola, Tero Aittokallio, Mauno Vihinen, Esa ...
BMCBI
2004
96views more  BMCBI 2004»
13 years 8 months ago
Identification of regions in multiple sequence alignments thermodynamically suitable for targeting by consensus oligonucleotides
Background: Computer programs for the generation of multiple sequence alignments such as "Clustal W" allow detection of regions that are most conserved among many sequen...
Olga V. Matveeva, Brian T. Foley, Vladimir A. Nemt...
NAR
1998
92views more  NAR 1998»
13 years 8 months ago
5S rRNA Data Bank
In this paper we present the updated version of the compilation of 5S rRNA and 5S rDNA nucleotide sequences. It contains 1622 primary structures of 5S rRNAs and 5S rRNA genes from...
Maciej Szymanski, Thomas Specht, Miroslawa Z. Barc...
JCB
2007
94views more  JCB 2007»
13 years 8 months ago
Locality and Gaps in RNA Comparison
Locality is an important and well-studied notion in comparative analysis of biological sequences. Similarly, taking into account affine gap penalties when calculating biological ...
Rolf Backofen, Shihyen Chen, Danny Hermelin, Gad M...
JCC
2011
87views more  JCC 2011»
13 years 3 months ago
NUPACK: Analysis and design of nucleic acid systems
: The Nucleic Acid Package (NUPACK) is a growing software suite for the analysis and design of nucleic acid systems. The NUPACK web server (http://www.nupack.org) currently enables...
Joseph N. Zadeh, Conrad Steenberg, Justin S. Bois,...