Ensemble attribute profile clustering: discovering and characterizing groups of genes with similar patterns of biological featur

Background: Ensemble attribute profile clustering is a novel, text-based strategy for analyzing a userdefined list of genes and/or proteins. The strategy exploits annotation data present in gene-centered corpora and utilizes ideas from statistical information retrieval to discover and characterize properties shared by subsets of the list. The practical utility of this method is demonstrated by employing it in a retrospective study of two non-overlapping sets of genes defined by a published investigation as markers for normal human breast luminal epithelial cells and myoepithelial cells. Results: Each genetic locus was characterized using a finite set of biological properties and represented as a vector of features indicating attributes associated with the locus (a gene attribute profile). In this study, the vector space models for a pre-defined list of genes were constructed from the Gene Ontology (GO) terms and the Conserved Domain Database (CDD) protein domain terms assigned to the ...

• Type: Journal
• Year: 2006
• Where: BMCBI
• Authors: J. R. Semeiks, A. Rizki, Mina J. Bissell, I. Saira Mian
• Keywords: Attribute Profile, BMCBI 2006, Luminal Epithelial Cell, Profile