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» Efficient computation of absent words in genomic sequences
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ACST
2006
14 years 11 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...
RECOMB
2002
Springer
15 years 10 months ago
DNA sequence evolution with neighbor-dependent mutation
We introduce a model of DNA sequence evolution which can account for biases in mutation rates that depend on the identity of the neighboring bases. An analytic solution for this c...
Peter F. Arndt, Christopher B. Burge, Terence Hwa
RECOMB
2002
Springer
15 years 10 months ago
Provably sensitive Indexing strategies for biosequence similarity search
The field of algorithms for pairwisc biosequence similarity search is dominated by heuristic methods of high efficiency but uncertain sensitivity. One reason that more formal stri...
Jeremy Buhler
RECOMB
2003
Springer
15 years 10 months ago
Accurate detection of very sparse sequence motifs
Protein sequence alignments are more reliable the shorter the evolutionary distance. Here, we align distantly related proteins using many closely spaced intermediate sequences as ...
Andreas Heger, Michael Lappe, Liisa Holm
BMCBI
2011
14 years 1 months ago
A user-friendly web portal for T-Coffee on supercomputers
Background: Parallel T-Coffee (PTC) was the first parallel implementation of the T-Coffee multiple sequence alignment tool. It is based on MPI and RMA mechanisms. Its purpose is t...
Josep Rius Torrento, Fernando Cores, Francesc Sols...