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» A Framework for the Comparison of Complex Patterns
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APBC
2004
108views Bioinformatics» more  APBC 2004»
15 years 5 months ago
Ladderlike Stepping and Interval Jumping Searching Algorithms for DNA Sequences
In this study we have designed a novel algorithm for searching common segments in multiple DNA sequences. To improve efficiency in pattern searching, combination of hashing encodi...
Tun-Wen Pai, Margaret Dah-Tsyr Chang, Jia-Han Chu,...
BMCBI
2007
142views more  BMCBI 2007»
15 years 3 months ago
SABERTOOTH: protein structural alignment based on a vectorial structure representation
Background: The task of computing highly accurate structural alignments of proteins in very short computation time is still challenging. This is partly due to the complexity of pr...
Florian Teichert, Ugo Bastolla, Markus Porto
BMCBI
2005
113views more  BMCBI 2005»
15 years 3 months ago
Pathway level analysis of gene expression using singular value decomposition
Background: A promising direction in the analysis of gene expression focuses on the changes in expression of specific predefined sets of genes that are known in advance to be rela...
John K. Tomfohr, Jun Lu, Thomas B. Kepler
WABI
2009
Springer
132views Bioinformatics» more  WABI 2009»
15 years 10 months ago
mpscan: Fast Localisation of Multiple Reads in Genomes
Abstract. With Next Generation Sequencers, sequence based transcriptomic or epigenomic assays yield millions of short sequence reads that need to be mapped back on a reference geno...
Eric Rivals, Leena Salmela, Petteri Kiiskinen, Pet...
ICA
2012
Springer
13 years 11 months ago
On Revealing Replicating Structures in Multiway Data: A Novel Tensor Decomposition Approach
A novel tensor decomposition called pattern or P-decomposition is proposed to make it possible to identify replicating structures in complex data, such as textures and patterns in ...
Anh Huy Phan, Andrzej Cichocki, Petr Tichavsk&yacu...