Pairwise sequence alignment—it's all about us!

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Pairwise sequence alignment - it's all about us!

Pairwise alignment is one of the most fundamental tools of bioinformatics and underpins a variety of other, more sophisticated methods of annotation. Pairwise alignment in its most rigorous form uses a method called ‘dynamic programming’, which is highly accurate, but also incredibly costly to compute. In order to align anything other than an exact alphabetic match, the algorithm has to know wh...

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Pairwise Sequence Alignment

Instructions for obtaining the Solution Sheet are available by sending email to [email protected], with no subject line, and the following message body: subscribe vsns-bcd-solutions VSNS{BCD Copyright. The text may be redistributed verbatim, in whole or in part, for research and educational purposes only. If distributed in part, it must include this copyright notice, and a pointer ...

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Probabalistic pairwise sequence alignment

We describe an new algorithm for visualizing an alignment of biological sequences according to a probabilistic model of evolution. The resulting data array is readily interpreted by the human eye and amenable to digital image techniques. We present examples using mRNA sequences from mouse and rat: three cytochromes and two zinc finger proteins. The underlying evolutionary model is derived from ...

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Probabilistic pairwise sequence alignment

We describe an new algorithm for visualizing an alignment of biological sequences according to a probabilistic model of evolution. The resulting data array is readily interpreted by the human eye and amenable to digital image techniques. We present examples using mRNA sequences from mouse and rat: three cytochromes and two zinc finger proteins. The underlying evolutionary model is derived from ...

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The Pairwise Sequence Alignment Problem

For many human genes, their nucleotide or protein sequence is similar to that of a gene in another organism. Genes from two different organisms can have similar sequences for a variety of reasons, but often the genes share a common ancestor and are said to be related or homologous. Figure 1 illustrates two homologous sequences from part of a gene that codes for a leukemia transcription factor f...

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ژورنال

عنوان ژورنال: Briefings in Bioinformatics

سال: 2006

ISSN: 1467-5463

DOI: 10.1093/bib/bbk008