RetroMine, or how to provide in-depth retrospective studies from Medline in a glance: the hepcidin use-case release_nfyuq5ygrres3cvvtiyeefbh3u

by Bertrand Ameline de Cadeville, Olivier Loréal, Fouzia Moussouni-Marzolf

Published in Journal of Integrative Bioinformatics.

2015   Volume 12, Issue 3, p275

Abstract

The rapid expansion of biomedical literature has provoked an increased development of advanced text mining tools to rapidly extract relevant events from the continuously increasing amount of knowledge published periodically in PubMed. However, bioinvestigators are still reluctant to use these tools for two reasons: i) a large volume of events is often extracted upon a query, and this volume is hard to manage, and ii) background events dominate search results and overshadow more pertinent published information, especially for domain experts. In this paper, we propose an approach that incorporates the temporal dimension of published events to the process of information extraction to improve data selection and prioritize more pertinent periodically published knowledge for scientists. Indeed, instead of providing the total knowledge associated with a PubMed query, which is usually a mix of trivial background information and non-background information, we propose a method that incorporates time and selects non background and highly relevant biological entities and events published over time for bioinvestigators. Before excluding background events from the total knowledge extracted, a quantification of their amount is also provided. This work is illustrated by a case study regarding Hepcidin gene publications over a decade, a duration that is sufficiently long enough to generate alternative views on the overall data extracted.
In text/plain format

Archived Files and Locations

application/pdf  2.1 MB
file_efd3ga6xsfcnboboyvchgjk7ny
www.degruyter.com (publisher)
web.archive.org (webarchive)
Read Archived PDF
Preserved and Accessible
Type  article-journal
Stage   published
Date   2015-10-06
Language   en ?
Journal Metadata
Open Access Publication
In DOAJ
In Keepers Registry
ISSN-L:  1613-4516
Work Entity
access all versions, variants, and formats of this works (eg, pre-prints)
Catalog Record
Revision: 87824438-3b05-45ce-9389-648ef4b3ee60
API URL: JSON