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BMCBI
2004
196views more  BMCBI 2004»
15 years 6 months ago
MUSCLE: a multiple sequence alignment method with reduced time and space complexity
Background: In a previous paper, we introduced MUSCLE, a new program for creating multiple alignments of protein sequences, giving a brief summary of the algorithm and showing MUS...
Robert C. Edgar
ECCB
2008
IEEE
16 years 26 days ago
Connect the dots: exposing hidden protein family connections from the entire sequence tree
Motivation: Mapping of remote evolutionary links is a classic computational problem of much interest. Relating protein families allows for functional and structural inference on u...
Yaniv Loewenstein, Michal Linial
BMCBI
2004
125views more  BMCBI 2004»
15 years 6 months ago
A functional hierarchical organization of the protein sequence space
Background: It is a major challenge of computational biology to provide a comprehensive functional classification of all known proteins. Most existing methods seek recurrent patte...
Noam Kaplan, Moriah Friedlich, Menachem Fromer, Mi...
BIBM
2010
IEEE
156views Bioinformatics» more  BIBM 2010»
15 years 4 months ago
Truncation of protein sequences for fast profile alignment with application to subcellular localization
We have recently found that the computation time of homology-based subcellular localization can be substantially reduced by aligning profiles up to the cleavage site positions of s...
Man-Wai Mak, Wei Wang, Sun-Yuan Kung
ISPD
2003
ACM
79views Hardware» more  ISPD 2003»
15 years 11 months ago
Floorplanning of pipelined array modules using sequence pairs
Floorplanning individual pipelined array modules of a larger overall die can yield beneficial results. Critical paths in every pipeline stage of a pipelined design are roughly equ...
Matthew Moe, Herman Schmit