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BMCBI
2010
90views more  BMCBI 2010»
13 years 8 months ago
Local alignment of generalized k-base encoded DNA sequence
Background: DNA sequence comparison is a well-studied problem, in which two DNA sequences are compared using a weighted edit distance. Recent DNA sequencing technologies however o...
Nils Homer, Stanley F. Nelson, Barry Merriman
BMCBI
2011
12 years 11 months ago
Wavelet-based identification of DNA focal genomic aberrations from single nucleotide polymorphism arrays
Background: Copy number aberrations (CNAs) are an important molecular signature in cancer initiation, development, and progression. However, these aberrations span a wide range of...
Youngmi Hur, Hyunju Lee
NAR
2011
172views Computer Vision» more  NAR 2011»
12 years 10 months ago
NGSmethDB: a database for next-generation sequencing single-cytosine-resolution DNA methylation data
Next-generation sequencing (NGS) together with bisulphite conversion allows the generation of whole genome methylation maps at single-cytosine resolution. This allows studying the...
Michael Hackenberg, Guillermo Barturen, José...
GECCO
2007
Springer
209views Optimization» more  GECCO 2007»
13 years 11 months ago
Hardware acceleration of multi-deme genetic algorithm for the application of DNA codeword searching
A large and reliable DNA codeword library is key to the success of DNA based computing. Searching for sets of reliable DNA codewords is an NP-hard problem, which can take days on ...
Qinru Qiu, Daniel J. Burns, Prakash Mukre, Qing Wu
CMSB
2011
Springer
12 years 7 months ago
Reversible structures
Reversible structures are computational units that may progress forward and backward. We study weak coherent structures that are primarily inspired by dna circuits and may be comp...
Luca Cardelli, Cosimo Laneve