Search queries on biomedical databases, such as PubMed, often return a large number of results, only a small subset of which is relevant to the user. Ranking and categorization, which can also be combined, have been proposed to alleviate this information overload problem. Results categorization for biomedical databases is the focus of this work. A natural way to organize biomedical citations is according to their MeSH annotations.
MeSH is a comprehensive concept hierarchy used by PubMed. In this paper, we present the BioNav system, a novel search interface that enables the user to navigate large number of query results by organizing them using the MeSH concept hierarchy. First, the query results are organized into a navigation tree. At each node expansion step, BioNav reveals only a small subset of the concept nodes, selected such that the expected user navigation cost is minimized. In contrast, previous works expand the hierarchy in a predefined static manner, without navigation cost modeling.
We show that the problem of selecting the best concepts to reveal at each node expansion is NP-complete and propose an efficient heuristic as well as a feasible optimal algorithm for relatively small trees. We show experimentally that BioNav outperforms state-of-the-art categorization systems with respect to the user navigation cost. We have implemented BioNav for the MEDLINE database at http://db.cse.buffalo.edu/bionav.
Existing search operation Information overload is a major problem when searching
Biomedical databases such as PubMed, where typically a large number of citations are returned, of which only a small subset is relevant to the user.
The proposals dynamically categorize SQL query results by inferring a hierarchy based on the characteristics of the result tuples. Their domain is the tuple attributes and their problem is how to organize them hierarchically in order to minimize the navigation cost. They also decide the value ranges for each attribute, for both categorical and numerical ones, and how to rank them. One of the systems takes into consideration the user’s preferences during the inference for a more personalized experience.
Once the hierarchy is inferred, they follow a static navigation method. BioNav is distinct since it offers dynamic navigation on a predefined hierarchy, as is the MeSH concept hierarchy. Hence, BioNav is complementary to these systems, since it can be used to optimize the navigation, after these systems construct the navigation tree.
- Query Search process (or) Biomedical Search Systems
- Dynamic navigation tree
- Hierarchy navigation web (interface) search
- Query Workload online operation