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» RNA structure alignment by a unit-vector approach
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BMCBI
2010
104views more  BMCBI 2010»
13 years 6 months ago
Parameters for accurate genome alignment
Background: Genome sequence alignments form the basis of much research. Genome alignment depends on various mundane but critical choices, such as how to mask repeats and which sco...
Martin C. Frith, Michiaki Hamada, Paul Horton
BMCBI
2008
114views more  BMCBI 2008»
13 years 6 months ago
Dinucleotide controlled null models for comparative RNA gene prediction
Background: Comparative prediction of RNA structures can be used to identify functional noncoding RNAs in genomic screens. It was shown recently by Babak et al. [BMC Bioinformatic...
Tanja Gesell, Stefan Washietl
BMCBI
2007
226views more  BMCBI 2007»
13 years 6 months ago
MiRFinder: an improved approach and software implementation for genome-wide fast microRNA precursor scans
Background: MicroRNAs (miRNAs) are recognized as one of the most important families of noncoding RNAs that serve as important sequence-specific post-transcriptional regulators of ...
Ting-Hua Huang, Bin Fan, Max F. Rothschild, Zhi-Li...
JPDC
2010
133views more  JPDC 2010»
13 years 18 days ago
Lock-free parallel dynamic programming
We show a method for parallelizing top down dynamic programs in a straightforward way by a careful choice of a lock-free shared hash table implementation and randomization of the ...
Alex Stivala, Peter J. Stuckey, Maria Garcia de la...
GCB
2006
Springer
119views Biometrics» more  GCB 2006»
13 years 9 months ago
Comparative Analysis of Cyclic Sequences: Viroids and other Small Circular RNAs
: The analysis of small circular sequences requires specialized tools. While the differences between linear and circular sequences can be neglected in the case of long molecules su...
Axel Mosig, Ivo L. Hofacker, Peter F. Stadler