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» Suffix trees for very large genomic sequences
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BMCBI
2008
114views more  BMCBI 2008»
13 years 8 months ago
Visualization of large influenza virus sequence datasets using adaptively aggregated trees with sampling-based subscale represen
Background: With the amount of influenza genome sequence data growing rapidly, researchers need machine assistance in selecting datasets and exploring the data. Enhanced visualiza...
Leonid Zaslavsky, Yiming Bao, Tatiana A. Tatusova
GCB
2004
Springer
223views Biometrics» more  GCB 2004»
14 years 7 days ago
PoSSuMsearch: Fast and Sensitive Matching of Position Specific Scoring Matrices using Enhanced Suffix Arrays
: In biological sequence analysis, position specific scoring matrices (PSSMs) are widely used to represent sequence motifs. In this paper, we present a new nonheuristic algorithm, ...
Michael Beckstette, Dirk Strothmann, Robert Homann...
IDEAS
2008
IEEE
80views Database» more  IDEAS 2008»
14 years 2 months ago
Improved count suffix trees for natural language data
With more and more natural language text stored in databases, handling respective query predicates becomes very important. Optimizing queries with predicates includes (sub)string ...
Guido Sautter, Cristina Abba, Klemens Böhm
BMCBI
2008
77views more  BMCBI 2008»
13 years 8 months ago
SeqAn An efficient, generic C++ library for sequence analysis
Background: The use of novel algorithmic techniques is pivotal to many important problems in life science. For example the sequencing of the human genome [1] would not have been p...
Andreas Döring, David Weese, Tobias Rausch, K...
BMCBI
2008
125views more  BMCBI 2008»
13 years 8 months ago
A fast algorithm for the multiple genome rearrangement problem with weighted reversals and transpositions
Background: Due to recent progress in genome sequencing, more and more data for phylogenetic reconstruction based on rearrangement distances between genomes become available. Howe...
Martin Bader, Mohamed Ibrahim Abouelhoda, Enno Ohl...