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» Aligning alignments exactly
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BMCBI
2008
116views more  BMCBI 2008»
13 years 5 months ago
Clustering exact matches of pairwise sequence alignments by weighted linear regression
Background: At intermediate stages of genome assembly projects, when a number of contigs have been generated and their validity needs to be verified, it is desirable to align thes...
Alvaro J. González, Li Liao
TIT
2011
125views more  TIT 2011»
12 years 12 months ago
Exact-Repair MDS Code Construction Using Interference Alignment
Abstract—The high repair cost of (n;k) Maximum Distance Separable (MDS) erasure codes has recently motivated a new class of MDS codes, called Repair MDS codes, that can signific...
Changho Suh, Kannan Ramchandran
COCOA
2007
Springer
13 years 11 months ago
A Lagrangian Relaxation Approach for the Multiple Sequence Alignment Problem
Abstract. We present a branch-and-bound (bb) algorithm for the multiple sequence alignment problem (MSA), one of the most important problems in computational biology. The upper bou...
Ernst Althaus, Stefan Canzar
BMCBI
2005
123views more  BMCBI 2005»
13 years 4 months ago
PSI-BLAST-ISS: an intermediate sequence search tool for estimation of the position-specific alignment reliability
Background: Protein sequence alignments have become indispensable for virtually any evolutionary, structural or functional study involving proteins. Modern sequence search and com...
Mindaugas Margelevicius, Ceslovas Venclovas