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» Sequence Comparison Using a Relational Database Approach
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BMCBI
2008
111views more  BMCBI 2008»
15 years 20 days ago
SciDBMaker: new software for computer-aided design of specialized biological databases
Background: The exponential growth of research in molecular biology has brought concomitant proliferation of databases for stocking its findings. A variety of protein sequence dat...
Riadh Hammami, Abdelmajid Zouhir, Karim Naghmouchi...
156
Voted
BMCBI
2011
14 years 4 months ago
Faster Smith-Waterman database searches with inter-sequence SIMD parallelisation
Background: The Smith-Waterman algorithm for local sequence alignment is more sensitive than heuristic methods for database searching, but also more time-consuming. The fastest ap...
Torbjørn Rognes
SIGMOD
2010
ACM
211views Database» more  SIGMOD 2010»
15 years 5 months ago
ERACER: a database approach for statistical inference and data cleaning
Real-world databases often contain syntactic and semantic errors, in spite of integrity constraints and other safety measures incorporated into modern DBMSs. We present ERACER, an...
Chris Mayfield, Jennifer Neville, Sunil Prabhakar
AUSAI
2008
Springer
15 years 2 months ago
Propositionalisation of Profile Hidden Markov Models for Biological Sequence Analysis
Hidden Markov Models are a widely used generative model for analysing sequence data. A variant, Profile Hidden Markov Models are a special case used in Bioinformatics to represent,...
Stefan Mutter, Bernhard Pfahringer, Geoffrey Holme...
106
Voted
SIGMOD
2011
ACM
150views Database» more  SIGMOD 2011»
14 years 3 months ago
WHAM: a high-throughput sequence alignment method
Over the last decade the cost of producing genomic sequences has dropped dramatically due to the current so called “next-gen” sequencing methods. However, these next-gen seque...
Yinan Li, Allison Terrell, Jignesh M. Patel