Protein blocks consist of multiply aligned sequence segments without gaps that represent
the most highly conserved regions of protein families. A database of blocks has been …

Motivation: We present techniques for increasing the speed of sequence analysis using
scoring matrices. Our techniques are based on calculating, for a given scoring matrix, the …

Position-specific scoring matrices are a popular choice for modelling signals or motifs in
biological sequences, both in DNA and protein contexts. A lot of effort has been dedicated to …

The 454 pyrosequencing technology is gaining popularity as an alternative to traditional
Sanger sequencing. While each method has comparative advantages over the other, certain …

Computational tools for protein structure prediction are of great interest to molecular,
structural and theoretical biologists due to a rapidly increasing number of protein sequences …

This chapter reviews the different approaches that have been applied to the problem of
protein motif identification. Several methods are available for finding motifs within protein …

Profile searches using aligned short protein blocks are an effective method for identifying
putative protein functions. An algorithm is presented that accelerates block searches by a …

A significant proportion of coding sequences or open reading frames discovered in the
course of sequencing projects do not show any similarity with other sequences deposited …

The 454 pyrosequencing technology is gaining popularity as an alternative to traditional
Sanger sequencing. While each method has comparative advantages over the other, certain …

The field of protein structure prediction moves rapidly and in the last few years there have
been a number of important developments. The accuracy of methods such as secondary …