The family based variability in protein family expansion. (1st January 2013)

• Record Type: Journal Article
• Authors: Sarkar, Anasua; Nikolski, Macha; Durrens, Pascal
• Is Part Of: International journal of bioinformatics research and applications. Volume 9:Number 2(2013)
• Page Start: 121
• Page End: 133
• Publication Date: 2013-01-01
• Subjects: protein family expansion -- sequence profile -- protein specific scoring matrix -- remote homologues -- ROC analysis -- alignment selection criteria -- optimal filtering strategy; Bioinformatics -- Periodicals; 570.285
• Languages: English
• ISSNs: 1744-5485

Abstract

In this paper we propose an automatic protein family expansion approach for recruitment of new members among the protein-coding genes in newly sequenced genomes. The criteria for adding a new member to a family depends on the structure of each individual family versus being globally uniform. The detection of a threshold in the ROC space of all sorted iterative profile sets defines the alignments selection criteria for each family. Furthermore, the statistical estimation of most-frequent optimal sorting criteria generates the optimal filtering strategy in a learning-parameter set for profile-based homology search.