title: Literature Mapping with PubAtlas - extending PubMed with a 'BLASTing interface'.
abstract: PubAtlas (www.pubatlas.org) is a web service and standalone program providing literature maps for the biomedical research literature. It accepts user-defined sets of terms (PubMed queries) as input, and permits 'BLASTing' of one set against another: for all terms x and y in these sets, deriving the results of the pairwise intersections x AND y. This all vs. all capability extends PubMed with a literature analysis interface. Correspondingly, the basic form of literature map that PubAtlas provides for exploring associations among sets of terms is an interactive tabular display, in heatmap/microarray format.PubAtlas supports development of specialized lexica -- hierarchies of controlled terminology that can represent sets of related concepts or a 'user-defined query language'. PubAtlas also provides historical perspectives on the literature, with temporal query features that highlight historical patterns. Generally, it is a framework for extending the PubMed interface, and an extensible platform for producing interactive literature maps.
authors.affiliation: Computer Science Dept, UCLA;
authors.forename: D S
authors.initials: DS
authors.lastname: Parker
authors.forename: W W
authors.initials: WW
authors.lastname: Chu
authors.forename: F W
authors.initials: FW
authors.lastname: Sabb
authors.forename: A W
authors.initials: AW
authors.lastname: Toga
authors.forename: R M
authors.initials: RM
authors.lastname: Bilder