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» Suboptimal Local Alignments Across Multiple Scoring Schemes
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BMCBI
2006
137views more  BMCBI 2006»
13 years 5 months ago
Sigma: multiple alignment of weakly-conserved non-coding DNA sequence
Background: Existing tools for multiple-sequence alignment focus on aligning protein sequence or protein-coding DNA sequence, and are often based on extensions to Needleman-Wunsch...
Rahul Siddharthan
HPDC
2010
IEEE
13 years 6 months ago
MPIPairwiseStatSig: parallel pairwise statistical significance estimation of local sequence alignment
Sequence comparison is considered as a cornerstone application in bioinformatics, which forms the basis of many other applications. In particular, pairwise sequence alignment is a...
Ankit Agrawal, Sanchit Misra, Daniel Honbo, Alok N...
COMPLIFE
2006
Springer
13 years 9 months ago
A Point-Matching Based Algorithm for 3D Surface Alignment of Drug-Sized Molecules
Abstract. Molecular shapes play an important role in molecular interactions, e.g., between a protein and a ligand. The `outer' shape of a molecule can be approximated by its s...
Daniel Baum, Hans-Christian Hege
BMCBI
2005
152views more  BMCBI 2005»
13 years 5 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
SIGMOD
2007
ACM
136views Database» more  SIGMOD 2007»
14 years 5 months ago
Progressive optimization in a shared-nothing parallel database
Commercial enterprise data warehouses are typically implemented on parallel databases due to the inherent scalability and performance limitation of a serial architecture. Queries ...
Wook-Shin Han, Jack Ng, Volker Markl, Holger Kache...