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» The effect of sequence quality on sequence alignment
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ALIFE
2004
14 years 9 months ago
Using Avida to Test the Effects of Natural Selection on Phylogenetic Reconstruction Methods
Phylogenetic trees group organisms by their ancestral relationships. There are a number of distinct algorithms used to reconstruct these trees from molecular sequence data, but dif...
George I. Hagstrom, Dehua H. Hang, Charles Ofria, ...
DAS
2010
Springer
15 years 1 months ago
Towards more effective distance functions for word image matching
Matching word images has many applications in document recognition and retrieval systems. Dynamic Time Warping (DTW) is popularly used to estimate the similarity between word imag...
Raman Jain, C. V. Jawahar
BMCBI
2004
208views more  BMCBI 2004»
14 years 9 months ago
Using 3D Hidden Markov Models that explicitly represent spatial coordinates to model and compare protein structures
Background: Hidden Markov Models (HMMs) have proven very useful in computational biology for such applications as sequence pattern matching, gene-finding, and structure prediction...
Vadim Alexandrov, Mark Gerstein
89
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BMCBI
2007
142views more  BMCBI 2007»
14 years 9 months ago
SABERTOOTH: protein structural alignment based on a vectorial structure representation
Background: The task of computing highly accurate structural alignments of proteins in very short computation time is still challenging. This is partly due to the complexity of pr...
Florian Teichert, Ugo Bastolla, Markus Porto
BIBE
2003
IEEE
183views Bioinformatics» more  BIBE 2003»
15 years 2 months ago
Effective Indexing and Filtering for Similarity Search in Large Biosequence Databases
We present a multi-dimensional indexing approach for fast sequence similarity search in DNA and protein databases. In particular, we propose effective transformations of subsequen...
Ozgur Ozturk, Hakan Ferhatosmanoglu