Results 61 to 70 of about 1,513,801 (381)
Multiple sequence alignment with the Clustal series of programs
Nucleic Acids Res., 2003 The Clustal series of programs are widely used in molecular biology for the multiple alignment of both nucleic acid and protein sequences and for preparing phylogenetic trees.
Chenna Ramu +6 more
semanticscholar +1 more source
Multiple Sequence Alignment Based on Profile Alignment of Intermediate Sequences [PDF]
Journal of Computational Biology, 2007 Despite considerable efforts, it remains difficult to obtain accurate multiple sequence alignments. By using additional hits from database search of the input sequences, a few strategies have been proposed to significantly improve alignment accuracy, including the construction of profiles from the hits while performing profile alignment, the inclusion ...
Sing-Hoi Sze, Yue Lu
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Multiple sequence alignment with user-defined anchor points
Algorithms for Molecular Biology, 2006 Background Automated software tools for multiple alignment often fail to produce biologically meaningful results. In such situations, expert knowledge can help to improve the quality of alignments.
Pöhler Dirk +3 more
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SINA: Accurate high-throughput multiple sequence alignment of ribosomal RNA genes
Bioinform., 2012 MOTIVATION In the analysis of homologous sequences, computation of multiple sequence alignments (MSAs) has become a bottleneck. This is especially troublesome for marker genes like the ribosomal RNA (rRNA) where already millions of sequences are publicly
E. Pruesse, J. Peplies, F. Glöckner
semanticscholar +1 more source
ViralMSA: Massively scalable reference-guided multiple sequence alignment of viral genomes
bioRxiv, 2020 Motivation In molecular epidemiology, the identification of clusters of transmissions typically requires the alignment of viral genomic sequence data.
Niema Moshiri
semanticscholar +1 more source
Proceedings of the International Conference on Bioinformatics, Computational Biology and Biomedical Informatics, 2013 This paper introduces a simple and effective approach to improve the accuracy of multiple sequence alignment. We use a natural measure to estimate the similarity of the input sequences, and based on this measure, we align the input sequences differently.
Lam, TW +6 more
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Grammar-based distance in progressive multiple sequence alignment
BMC Bioinformatics, 2008 Background We propose a multiple sequence alignment (MSA) algorithm and compare the alignment-quality and execution-time of the proposed algorithm with that of existing algorithms.
Sayood Khalid +2 more
doaj +1 more source
Alignment of asymmetric-top molecules using multiple-pulse trains [PDF]
Phys. Rev. A 81, 065401 (2010), 2010 We theoretically analyze the effectiveness of multiple-pulse laser alignment methods for asymmetric-top molecules. As an example, we choose SO_2 and investigate the alignment dynamics induced by two different sequences, each consisting of four identical laser pulses. Each sequence differs only in the time delay between the pulses. Equally spaced pulses
arxiv +1 more source
A tool for multiple sequence alignment. [PDF]
Proceedings of the National Academy of Sciences, 1989 Multiple sequence alignment can be a useful technique for studying molecular evolution and analyzing sequence-structure relationships. Until recently, it has been impractical to apply dynamic programming, the most widely accepted method for producing pairwise alignments, to comparisons of more than three sequences.
John Kececioglu +2 more
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, 2008 Multiple sequence alignment (MSA) has assumed a key role in comparative structure and function analysis of biological sequences. It often leads to fundamental biological insight into sequence-structure-function relationships of nucleotide or protein sequence families.
Pirovano, W., Heringa, J.
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