Results 261 to 270 of about 483,132 (293)

An Overview of Multiple Sequence Alignment

Current Protocols in Bioinformatics, 2003
AbstractMultiple sequence alignment is perhaps the most commonly applied bioinformatics technique. It often leads to fundamental biological insight into sequence‐structure‐function relationships of nucleotide or protein sequence families. In this unit, an overview of multiple sequence alignment techniques is presented, covering a history of nearly 30 ...
Victor, Simossis, Jens, Kleinjung, Jaap, Heringa   +2 more
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Multithreaded Multiple Sequence Alignments

2005 IEEE Engineering in Medicine and Biology 27th Annual Conference, 2005
Based on the mixed idea of Progressive alignment and Divide-and-conquer alignment, two different multithreaded multiple sequence alignment programs, depending on how the guide tree(s) would be applied, are implemented for checking the improvements of alignment speed and sensitivity.
Joanne, Bai, Siamak, Rezaei
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Multiple Sequence Alignment on an FPGA

11th International Conference on Parallel and Distributed Systems (ICPADS'05), 2006
Molecular biologists frequently compute multiple sequence alignments (MSAs) to identify similar regions in protein families. Progressive alignment is a widely used approach to compute MSAs. However, aligning a few hundred sequences by popular progressive alignment tools requires several hours on sequential computers.
Timothy F. Oliver, Bertil Schmidt, Douglas L. Maskell, Darran Nathan, Ralf Clemens   +4 more
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Multiple protein sequence alignment

Current Opinion in Structural Biology, 2008
Multiple sequence alignments are essential in computational analysis of protein sequences and structures, with applications in structure modeling, functional site prediction, phylogenetic analysis and sequence database searching. Constructing accurate multiple alignments for divergent protein sequences remains a difficult computational task, and ...
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Optimization of multiple‐sequence alignment based on multiple‐structure alignment

Proteins: Structure, Function, and Bioinformatics, 2005
AbstractRoutinely used multiple‐sequence alignment methods use only sequence information. Consequently, they may produce inaccurate alignments. Multiple‐structure alignment methods, on the other hand, optimize structural alignment by ignoring sequence information.
Maxim, Shatsky, Ruth, Nussinov, Haim J, Wolfson   +2 more
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DNA multiple sequence alignments

2002
In this chapter we examine the procedure of multiple sequence alignment. We first examine the heuristic procedures commonly used in multiple sequence alignment. Next we examine sources of ambiguity involved in the alignment procedure. We suggest that several alignment parameters be employed to examine alignment sensitivity.
Gonzalo, Giribet, Ward C, Wheeler, Jyrki, Muona   +2 more
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Assessing the Discordance of Multiple Sequence Alignments

IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2009
Multiple sequence alignments have wide applicability in many areas of computational biology, including comparative genomics, functional annotation of proteins, gene finding, and modeling evolutionary processes. Because of the computational difficulty of multiple sequence alignment and the availability of numerous tools, it is critical to be able to ...
Amol Prakash, Martin Tompa
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A genetic algorithm for multiple sequence alignment

Soft Computing, 2004
Multiple 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, Li-Cheng Wu, Ching-Mei Lin, Bing-He Yang   +3 more
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Aligning Multiple RNA Sequences

1991
Each cell in a living organism contains a complete design for all of the mechanisms that sustain its life. This blueprint is encoded in DNA and is called the genome of the organism. The basic activity of the cell involves maintaining an environment in which appropriate concentrations of specific proteins drive the reactions that characterize its normal
Ross A. Overbeek, Ian T. Foster
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Global multiple‐sequence alignment with repeats

Proteins: Structure, Function, and Bioinformatics, 2006
AbstractRepeating 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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