Approximation algorithms for multiple sequence alignment
نویسندگان
چکیده
منابع مشابه
Fast A Algorithms for Multiple Sequence Alignment
The multiple alignment of the sequences of DNA and proteins is applicable to various important elds in molecular biology. Although the approach based on Dynamic Programming is well-known for this problem, it requires enormous time and space to obtain the optimal alignment. On the other hand, this problem corresponds to the shortest path problem and the A algorithm, which can e ciently nd the sh...
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Pairwise local alignment is one of the most important problems in sequence analysis in computational biology. Classical dynamic programming solution to this problem searches for two segments with maximum similarity score by discarding poorly conserved initial and terminal fragments. As a consequence, an alignment returned as optimal may contain a mosaic of well-conserved fragments arti cially c...
متن کاملApproximation Algorithms for Multiple Sequence Alignment Under a Fixed Evolutionary Tree
We consider the problem of multiple sequence alignment under a xed evolu tionary tree given a tree whose leaves are labeled by sequences nd ancestral sequences to label its internal nodes so as to minimize the total length of the tree where the length of an edge is the edit distance between the sequences labeling its endpoints We present a new polynomial time approximation algorithm for this pr...
متن کاملMultiple Sequence Alignment Using Optimization Algorithms
Proteins or genes that have similar sequences are likely to perform the same function. One of the most widely used techniques for sequence comparison is sequence alignment. Sequence alignment allows mismatches and insertion/deletion, which represents biological mutations. Sequence alignment is usually performed only on two sequences. Multiple sequence alignment, is a natural extension of two-se...
متن کاملRecent Evolutions of Multiple Sequence Alignment Algorithms
An ever-increasing number of biological modeling methods depend on the assembly of an accurate multiple sequence alignment (MSA). These include phylogenetic trees, profiles, and structure prediction. Assembling a suitable MSA is not, however, a trivial task, and none of the existing methods have yet managed to deliver biologically perfect MSAs. Many of the algorithms published these last years ...
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ژورنال
عنوان ژورنال: Theoretical Computer Science
سال: 1997
ISSN: 0304-3975
DOI: 10.1016/s0304-3975(97)00023-6