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» A genome alignment algorithm based on compression
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BMCBI
2005
152views more  BMCBI 2005»
14 years 9 months ago
Improved profile HMM performance by assessment of critical algorithmic features in SAM and HMMER
Background: Profile hidden Markov model (HMM) techniques are among the most powerful methods for protein homology detection. Yet, the critical features for successful modelling ar...
Markus Wistrand, Erik L. L. Sonnhammer
IPPS
2009
IEEE
15 years 4 months ago
Accelerating error correction in high-throughput short-read DNA sequencing data with CUDA
Emerging DNA sequencing technologies open up exciting new opportunities for genome sequencing by generating read data with a massive throughput. However, produced reads are signif...
Haixiang Shi, Bertil Schmidt, Weiguo Liu, Wolfgang...
ECCB
2005
IEEE
15 years 3 months ago
SIMAP - The similarity matrix of proteins
Similarity Matrix of Proteins (SIMAP) (http://mips.gsf. 10 de/simap) provides a database based on a precomputed similarity matrix covering the similarity space formed by .4 millio...
Roland Arnold, Thomas Rattei, Patrick Tischler, Mi...
IJIT
2004
14 years 10 months ago
Computing Entropy for Ortholog Detection
Abstract-- Biological sequences from different species are called orthologs if they evolved from a sequence of a common ancestor species and they have the same biological function....
Hsing-Kuo Pao, John Case
SCFBM
2008
131views more  SCFBM 2008»
14 years 9 months ago
FASH: A web application for nucleotides sequence search
: FASH (Fourier Alignment Sequence Heuristics) is a web application, based on the Fast Fourier Transform, for finding remote homologs within a long nucleic acid sequence. Given a ...
Isana Veksler-Lublinsky, Danny Barash, Chai Avisar...