BEReX: Biomedical entity-relationship explorer

Minji Jeon, Sunwon Lee, Kyubum Lee, Aik Choon Tan, Jaewoo Kang

Research output: Contribution to journalArticlepeer-review

7 Citations (Scopus)


Summary: Biomedical Entity-Relationship eXplorer (BEReX) is a new biomedical knowledge integration, search and exploration tool. BEReX integrates eight popular databases (STRING, DrugBank, KEGG, PhamGKB, BioGRID, GO, HPRD and MSigDB) and delineates an integrated network by combining the information available from these databases. Users search the integrated network by entering key words, and BEReX returns a sub-network matching the key words. The resulting graph can be explored interactively. BEReX allows users to find the shortest paths between two remote nodes, find the most relevant drugs, diseases, pathways and so on related to the current network, expand the network by particular types of entities and relations and modify the network by removing or adding selected nodes. BEReX is implemented as a standalone Java application. Availability and implementation: BEReX and a detailed user guide are available for download at our project Web site ( Supplementary Information: Supplementary methods and user guide are available at Bioinformatics online.

Original languageEnglish
Pages (from-to)135-136
Number of pages2
Issue number1
Publication statusPublished - 2014 Jan 1

Bibliographical note

Funding Information:
Funding: National Research Foundation of Korea Grant (NRF-2012S1A2A1A01031573 to J.K.).

ASJC Scopus subject areas

  • Statistics and Probability
  • Biochemistry
  • Molecular Biology
  • Computer Science Applications
  • Computational Theory and Mathematics
  • Computational Mathematics


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