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» DNA Models and Algorithms for NP-Complete Problems
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EVOW
2010
Springer
13 years 6 months ago
Finding Gapped Motifs by a Novel Evolutionary Algorithm
Background: Identifying approximately repeated patterns, or motifs, in DNA sequences from a set of co-regulated genes is an important step towards deciphering the complex gene reg...
Chengwei Lei, Jianhua Ruan
WABI
2007
Springer
139views Bioinformatics» more  WABI 2007»
14 years 1 months ago
Computability of Models for Sequence Assembly
Graph-theoretic models have come to the forefront as some of the most powerful and practical methods for sequence assembly. Simultaneously, the computational hardness of the underl...
Paul Medvedev, Konstantinos Georgiou, Gene Myers, ...
IFIP
2004
Springer
14 years 1 months ago
Efficient Algorithms for Handling Molecular Weighted Sequences
Abstract In this paper we introduce the Weighted Suffix Tree, an efficient data structure for computing string regularities in weighted sequences of molecular data. Molecular Wei...
Costas S. Iliopoulos, Christos Makris, Yannis Pana...
DNA
2009
Springer
145views Bioinformatics» more  DNA 2009»
14 years 2 months ago
Distributed Agreement in Tile Self-assembly
Abstract. Laboratory investigations have shown that a formal theory of fault-tolerance will be essential to harness nanoscale self-assembly as a medium of computation. Several rese...
Aaron Sterling
WABI
2007
Springer
110views Bioinformatics» more  WABI 2007»
14 years 1 months ago
Haplotype Inference Via Hierarchical Genotype Parsing
The within-species genetic variation due to recombinations leads to a mosaic-like structure of DNA. This structure can be modeled, e.g. by parsing sample sequences of current DNA w...
Pasi Rastas, Esko Ukkonen