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» On numbers of Davenport-Schinzel sequences
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SPIRE
2009
Springer
15 years 5 months ago
Faster Algorithms for Sampling and Counting Biological Sequences
Abstract. A set of sequences S is pairwise bounded if the Hamming distance between any pair of sequences in S is at most 2d. The Consensus Sequence problem aims to discern between ...
Christina Boucher
IPPS
2005
IEEE
15 years 6 months ago
Comparison of Current BLAST Software on Nucleotide Sequences
The computational power needed for searching exponentially growing databases, such as GenBank, has increased dramatically. Three different implementations of the most widely used ...
I. Elizabeth Cha, Eric C. Rouchka
BIBE
2007
IEEE
128views Bioinformatics» more  BIBE 2007»
15 years 7 months ago
QOMA2: Optimizing the alignment of many sequences
Abstract—We consider the problem of aligning multiple protein sequences with the goal of maximizing the SP (Sum-of-Pairs) score, when the number of sequences is large. The QOMA (...
Xu Zhang, Tamer Kahveci
BMCBI
2007
114views more  BMCBI 2007»
15 years 1 months ago
False occurrences of functional motifs in protein sequences highlight evolutionary constraints
Background: False occurrences of functional motifs in protein sequences can be considered as random events due solely to the sequence composition of a proteome. Here we use a nume...
Allegra Via, Pier Federico Gherardini, Enrico Ferr...
NA
2008
103views more  NA 2008»
15 years 1 months ago
Monotonic sequences related to zeros of Bessel functions
Abstract. In the course of their work on Salem numbers and uniform distribution modulo 1, A. Akiyama and Y. Tanigawa proved some inequalities concerning the values of the Bessel fu...
Lee Lorch, Martin E. Muldoon