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Related Experiment Video

Updated: May 28, 2026

Comparing Bibliometric Analysis Using PubMed, Scopus, and Web of Science Databases
05:02

Comparing Bibliometric Analysis Using PubMed, Scopus, and Web of Science Databases

Published on: October 24, 2019

Biblio-MetReS: a bibliometric network reconstruction application and server.

Anabel Usié1, Hiren Karathia, Ivan Teixidó

  • 1Department d'Informàtica i Enginyeria Industrial, Universitat de Lleida, Av, Jaume II n°69, 25001 Lleida, Spain.

BMC Bioinformatics
|October 7, 2011
PubMed
Summary

This study introduces Biblio-MetReS, a user-friendly tool for reconstructing gene and protein networks from the latest scientific literature. It offers more complete network reconstructions by analyzing full-text documents compared to abstract-only methods.

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Area of Science:

  • Biomedical research
  • Bioinformatics
  • Computational biology

Background:

  • Automated reconstruction of gene and protein networks from scientific literature is a key area of text mining.
  • Existing tools often rely on precompiled databases or require expert users for full-text analysis.
  • A user-friendly tool for analyzing current online literature and reconstructing gene networks was lacking.

Purpose of the Study:

  • To present Biblio-MetReS, a novel tool for reconstructing gene and protein networks from online scientific documents.
  • To compare the performance and output of Biblio-MetReS with existing user-friendly applications like iHOP and STRING.
  • To evaluate the benefit of analyzing full-text documents versus abstracts for network reconstruction.

Main Methods:

  • Development of the Biblio-MetReS tool for text mining and network reconstruction.

Related Experiment Videos

Last Updated: May 28, 2026

Comparing Bibliometric Analysis Using PubMed, Scopus, and Web of Science Databases
05:02

Comparing Bibliometric Analysis Using PubMed, Scopus, and Web of Science Databases

Published on: October 24, 2019

  • Comparative analysis of network reconstruction using Biblio-MetReS, iHOP, and STRING.
  • Evaluation of network completeness based on analysis of full-text articles versus abstracts.

    • Main Results:

    • Biblio-MetReS generates comparable gene and protein networks to other established user-friendly tools.
    • Analysis of full-text scientific documents yields more comprehensive network reconstructions than using abstracts alone.
    • The tool provides a user-friendly environment for researchers to reconstruct networks of interest.

    Conclusions:

    • Automated literature-based network reconstruction, while not yet complete, is a valuable auxiliary tool in biomedical research.
    • The utility of these tools is expected to grow with improved standards for reporting biological entities and relationships.
    • Biblio-MetReS is an accessible application for researchers to build molecular networks from up-to-date scientific literature.