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BMCBI
2006
137views more  BMCBI 2006»
13 years 4 months ago
Chaos game representation for comparison of whole genomes
Background: Chaos game representation of genome sequences has been used for visual representation of genome sequence patterns as well as alignment-free comparisons of sequences ba...
Jijoy Joseph, Roschen Sasikumar
BMCBI
2008
101views more  BMCBI 2008»
13 years 4 months ago
Compressing DNA sequence databases with coil
Background: Publicly available DNA sequence databases such as GenBank are large, and are growing at an exponential rate. The sheer volume of data being dealt with presents serious...
W. Timothy J. White, Michael D. Hendy
BMCBI
2007
117views more  BMCBI 2007»
13 years 4 months ago
DNA-based watermarks using the DNA-Crypt algorithm
Background: The aim of this paper is to demonstrate the application of watermarks based on DNA sequences to identify the unauthorized use of genetically modified organisms (GMOs) ...
Dominik Heider, Angelika Barnekow
BIOSYSTEMS
2008
129views more  BIOSYSTEMS 2008»
13 years 4 months ago
Reconstruction of DNA sequences using genetic algorithms and cellular automata: Towards mutation prediction?
Change of DNA sequence that fuels evolution is, to a certain extent, a deterministic process because mutagenesis does not occur in an absolutely random manner. So far, it has not ...
Ch. Mizas, Georgios Ch. Sirakoulis, Vasilios A. Ma...
BMCBI
2010
90views more  BMCBI 2010»
13 years 4 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
ISMB
1996
13 years 5 months ago
Compact Encoding Strategies for DNA Sequence Similarity Search
Determining whether two DNA sequences are similar is an essential component of DNA sequence analysis. Dynamic programming is the algorithm of choice if computational time is not t...
David J. States, Pankaj Agarwal
ACST
2006
13 years 5 months ago
PDC: Pattern discovery with confidence in DNA sequences
Pattern discovery in DNA sequences is one of the most challenging tasks in molecular biology and computer science. The main goal of pattern discovery in DNA sequences is to identi...
Yi Lu, Shiyong Lu, Farshad Fotouhi, Yan Sun, Zijia...
DBSEC
2010
129views Database» more  DBSEC 2010»
13 years 6 months ago
Secure Outsourcing of DNA Searching via Finite Automata
This work treats the problem of error-resilient DNA searching via oblivious evaluation of finite automata, formulated as follows: a client has a DNA sequence, and a service provid...
Marina Blanton, Mehrdad Aliasgari
IBPRIA
2009
Springer
13 years 9 months ago
Variable Order Finite-Context Models in DNA Sequence Coding
Abstract. Being an essential key in biological research, the DNA sequences are often shared between researchers and digitally stored for future use. As these sequences grow in volu...
Daniel A. Martins, António J. R. Neves, Arm...
FPL
2003
Springer
130views Hardware» more  FPL 2003»
13 years 9 months ago
A Smith-Waterman Systolic Cell
With an aim to understand the information encoded by DNA sequences, databases containing large amount of DNA sequence information are frequently compared and searched for matching ...
Chi Wai Yu, K. H. Kwong, Kin-Hong Lee, Philip Heng...