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Global multiple‐sequence alignment with repeats
Proteins: Structure, Function, and Bioinformatics, 2006AbstractRepeating fragments in biological sequences are often essential for structure and function. Over the years, many methods have been developed to recognize repeats or to multiply align protein sequences. However, the integration of these two methodologies has been largely unexplored to date.
Sammeth, M., Heringa, J.
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A genetic algorithm for multiple sequence alignment
Soft Computing, 2004Multiple sequence alignment is an important tool in molecular sequence analysis. This paper presents genetic algorithms to solve multiple sequence alignments. Several data sets are tested and the experimental results are compared with other methods.
Jorng-Tzong Horng +3 more
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Multiple Sequence Alignment with DIALIGN
2013DIALIGN is a software tool for multiple sequence alignment by combining global and local alignment features. It composes multiple alignments from local pairwise sequence similarities. This approach is particularly useful to discover conserved functional regions in sequences that share only local homologies but are otherwise unrelated.
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2015
Multiple Sequence alignment (MSA) is a generalization of Pairwise Sequence Alignment to multiple sequences. Thus, instead of aligning two sequences, the objective in MSA is to align k sequences simultaneously such an overall functional is optimized. The motivation behind doing a MSA is that it allows us to extract consensus evident in a widely diverse ...
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Multiple Sequence alignment (MSA) is a generalization of Pairwise Sequence Alignment to multiple sequences. Thus, instead of aligning two sequences, the objective in MSA is to align k sequences simultaneously such an overall functional is optimized. The motivation behind doing a MSA is that it allows us to extract consensus evident in a widely diverse ...
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2017
Introduction Phylogeny estimation generally begins by estimating a multiple sequence alignment on the set of sequences. Once the multiple sequence alignment is computed, a tree can then be computed on the alignment (Figure 9.1). Not surprisingly, errors in multiple sequence alignment estimation tend to produce errors in estimated ...
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Introduction Phylogeny estimation generally begins by estimating a multiple sequence alignment on the set of sequences. Once the multiple sequence alignment is computed, a tree can then be computed on the alignment (Figure 9.1). Not surprisingly, errors in multiple sequence alignment estimation tend to produce errors in estimated ...
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Fast, scalable generation of high‐quality protein multiple sequence alignments using Clustal Omega
Molecular Systems Biology, 2011Johannes Söding +2 more
exaly
T-coffee: a novel method for fast and accurate multiple sequence alignment
Journal of Molecular Biology, 2000Jaap Heringa +2 more
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MAFFT online service: multiple sequence alignment, interactive sequence choice and visualization
Briefings in Bioinformatics, 2019Kazutaka Katoh, John Rozewicki
exaly
Multiple sequence alignment modeling: methods and applications.
Briefings in Bioinformatics, 2016Ionas Erb +2 more
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Optimization of multiple-sequence alignment based on multiple-structure alignment†
Proteins: Structure, Function and Bioinformatics, 2006Haim Wolfson +2 more
exaly