TY - GEN
T1 - DNAlign TT
T2 - 2008 IEEE International Conference on Electro/Information Technology, IEEE EIT 2008 Conference
AU - Agrawal, Ankit
AU - Xiaoqiu, Huang
PY - 2008
Y1 - 2008
N2 - Pairwise DNA and protein sequence alignment is an important task in bioinformatics which forms the basis of many other tasks like multiple sequence alignment, protein structure and function prediction, phylogenetic analysis. In general, more emphasis is given to protein sequence alignment, and the alignment methods designed for protein sequences can usually be used with little modification for DNA sequences as well. However, it is desirable to design methods specifically for DNA alignments, making use of specific DNA sequence models and if possible, also of the specific sequences being aligned. In this paper, we present an iterative method for DNA sequence alignment with sequence specific transition-transversion ratio. Preliminary experiments indicate that the proposed technique has significant potential. The approach better suits to the nature of the specific DNA sequence pair, and could be a significant step in the direction of using sequence specific substitution matrices for DNA sequences.
AB - Pairwise DNA and protein sequence alignment is an important task in bioinformatics which forms the basis of many other tasks like multiple sequence alignment, protein structure and function prediction, phylogenetic analysis. In general, more emphasis is given to protein sequence alignment, and the alignment methods designed for protein sequences can usually be used with little modification for DNA sequences as well. However, it is desirable to design methods specifically for DNA alignments, making use of specific DNA sequence models and if possible, also of the specific sequences being aligned. In this paper, we present an iterative method for DNA sequence alignment with sequence specific transition-transversion ratio. Preliminary experiments indicate that the proposed technique has significant potential. The approach better suits to the nature of the specific DNA sequence pair, and could be a significant step in the direction of using sequence specific substitution matrices for DNA sequences.
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U2 - 10.1109/EIT.2008.4554345
DO - 10.1109/EIT.2008.4554345
M3 - Conference contribution
AN - SCOPUS:51349151220
SN - 9781424420308
T3 - 2008 IEEE International Conference on Electro/Information Technology, IEEE EIT 2008 Conference
SP - 453
EP - 455
BT - 2008 IEEE International Conference on Electro/Information Technology, IEEE EIT 2008 Conference
Y2 - 18 May 2008 through 20 May 2008
ER -