Tag: MEDLINE

PESCADOR – Extract and Analyse a Network of Gene and Protein Interactions from a set of Medline abstracts

PESCADOR

:: DESCRIPTION

PESCADOR (Platform for Exploration of Significant Concepts AssociateD to co-Occurrences Relationships) is a web tool that extracts a network of interactions from a set of PubMed abstracts given by a user, and allows filtering the interaction network according to user-defined concepts.

::DEVELOPER

Computational Biology and Data Mining (CBDM) Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Server

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

BMC Bioinformatics. 2011 Nov 9;12:435. doi: 10.1186/1471-2105-12-435.
PESCADOR, a web-based tool to assist text-mining of biointeractions extracted from PubMed queries.
Barbosa-Silva A1, Fontaine JF, Donnard ER, Stussi F, Ortega JM, Andrade-Navarro MA.

FACTA+ 0.8.1 – Text Mining from MEDLINE

FACTA+ 0.8.1

:: DESCRIPTION

FACTA+ (Finding Associated Concepts with Text Analysis) is an advanced text mining tool that helps you discover associations between biomedical concepts from MEDLINE articles. The whole MEDLINE corpus containing more than 20 million articles is indexed with an efficient text search engine, and it allows you to navigate such associations and their textual evidence in a highly interactive manner — the system accepts arbitrary query terms and displays relevant concepts immediately. A broad range of important biomedical concepts are covered by the combination of a machine learning-based term recognizer and large-scale dictionaries for genes, proteins, diseases, and chemical compounds.

::DEVELOPER

Yoshimasa Tsuruoka

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Yoshimasa Tsuruoka, Jun’ichi Tsujii, and Sophia Ananiadou. 2008.
FACTA: a text search engine for finding associated biomedical concepts,
Bioinformatics, Vol. 24, No. 21, pp. 2559-2560.

Yoshimasa Tsuruoka, Makoto Miwa, Kaisei Hamamoto, Jun’ichi Tsujii, and Sophia Ananiadou. 2011.
Discovering and visualizing indirect associations between biomedical concepts,
Bioinformatics, Vol. 27 ISMB 2011, pp. i111-i119.

Twease 20090512 – Web-based tool to Search Medline

Twease 20090512

:: DESCRIPTION

Twease is a web-based tool to search Medline. Twease indexes each word of Medline, supports relevance or chronological searches, helps you find articles related to a set of articles of interest and provides many more features that can transparently expand your search to help find you the information you are looking for.

Twease Online Version

::DEVELOPER

Campagne Laboratory

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows / MacOsX
  • JDK
  • Ant
  • MG4J
  • FastUtil
  • Textractor
  • Apache Commons

:: DOWNLOAD

 Twease

:: MORE INFORMATION

med2bib 1.04 / toc2bib 1.04 – MEDLINE and TOC/DOC to BibTeX Conversion

med2bib 1.04 / toc2bib 1.04

:: DESCRIPTION

med2bib converts MEDLINE full-record ASCII bibliographic entries for journal articles into BibTeX entries.

toc2bib converts TOC/DOC (the electronic literature search engine available at Caltech) full-record entries.

::DEVELOPER

Laurent Itti, itti@klab.caltech.edu

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 med2bib / toc2bib

:: MORE INFORMATION