Deterministic motif mining in protein databases

• Type: Chapter or Part of a Book
• Date: 2007

Authors

Ferreira, PG (Author) Other; Azevedo, PJ (Author) Other

Book

Title: Successes and New Directions in Data Mining

Pages: 116-140

ISBN: 9781599046457

Electronic ISBN: 9781599046471

Indexing

Scopus - 1 Citation

Scientific classification

CORDIS: Physical sciences > Computer science > Informatics

FOS: Natural sciences > Computer and information sciences

Other information

Authenticus ID: P-009-AHY

DOI: 10.4018/978-1-59904-645-7.ch006

Abstract (EN): Protein sequence motifs describe, through means of enhanced regular expression syntax, regions of amino acids that have been conserved across several functionally related proteins. These regions may have an implication at the structural and functional level of the proteins. Sequence motif analysis can bring significant improvements towards a better understanding of the protein sequence-structure-function relation. In this chapter, we review the subject of mining deterministic motifs from protein sequence databases. We start by giving a formal definition of the different types of motifs and the respective specificities. Then, we explore the methods available to evaluate the quality and interest of such patterns. Examples of applications and motif repositories are described. We discuss the algorithmic aspects and different methodologies for motif extraction. A brief description on how sequence motifs can be used to extract structural level information patterns is also provided. © 2008, IGI Global.

Language: English

Type (Professor's evaluation): Scientific