BotXminer: Mining Biomedical Literature with a New Web-Based Application

Abstract

This paper outlines botXminer, a publicly available application to search XML-formatted MEDLINE data in a complete, object-relational schema implemented in Oracle XML DB. An advantage offered by botXminer is that it can generate quantitative results with certain queries that are not feasible through the Entrez-PubMed interface. After retrieving citations associated with user-supplied search terms, MEDLINE fields (title, abstract, journal, MeSH and chemical) and terms (MeSH qualifiers and descriptors, keywords, author, gene symbol and chemical), these citations are grouped and displayed as tabulated or graphic results. This work represents an extension of previous research for integrating these citations with relational systems. botXminer has a user-friendly, intuitive interface that can be freely accessed at http://botdb.abcc.ncifcrf.gov.

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Document Details

Document Type
Technical Report
Publication Date
Mar 21, 2006
Accession Number
ADA452715

Entities

People

  • David Bruining
  • David Liu
  • Frank J. Lebeda
  • Robert Stephens
  • Uma Mudunuri

Organizations

  • National Cancer Institute

Tags

DTIC Thesaurus Topics

  • Abstracts
  • Acids
  • Computer Languages
  • Computer Science
  • Databases
  • Domain Specific Programming Languages
  • Grammars
  • Language
  • Linguistics
  • Literature
  • Natural Languages
  • Nucleic Acids
  • Standards
  • User Interface
  • Web Browsers
  • Xml

Readers

  • Database Systems and Applications
  • Forest Ecology
  • Technical Research and Report Writing.

Technology Areas

  • Biotechnology