In this paper we present a first analysis towards better understanding of the query constraining aspects of knowledge, as expressed in the most used public medical bibliographic database MEDLINE. Our results indicate that new terms occur, but also that traditional terms are replaced by more specific ones and decrease in use as major defining keywords, even though they are still used in abstract...

We attempted to eliminate non-relevant papers from results of PubMed searches for each topic. The system is called PETER (PubMed Enhancer Toward Efficient Research) and it works as follows. 1. get LocusLink IDs manually. 2. collect information of gene names (AKA synonyms) from public databases. 3. make synonym variations automatically. 4. search papers by PubMed with each synonym. 5. extract ti...

This work presents preliminary findings of a broader content analysis study of the AIDS literature as published and reflected in key bibliographic databases. Specifically, this study focuses on the relatedness of the AIDS-defining diseases in persons with documented HIV infection—otherwise known as Opportunistic Infections (OIs)—to HIV/AIDS by measuring their strengths of association. Ultimatel...

Keeping track of the ever-increasing body of scientific literature is an escalating challenge. We present PubTree a hierarchical search tool that efficiently searches the PubMed/MEDLINE dataset based upon a decision tree constructed using >26 million abstracts. The tool is implemented as a webpage, where users are asked a series of eighteen questions to locate pertinent articles. The implementa...

UNLABELLED We present a new database, GPSDB (Gene and Protein Synonyms DataBase) which collects gene/protein names, in a species specific way, from 14 main biological resources. A web-based search interface gives access to the database: given a gene/protein name, it retrieves all synonyms for this entity and queries Medline with a set of user-selected terms. AVAILABILITY GPSDB is freely avail...

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