A machine learning-enabled open biodata resource inventory from the scientific literature
Modern biological research depends on data resources. These resources archive difficult-to-
reproduce data and provide added-value aggregation, curation, and analyses. Collectively …
reproduce data and provide added-value aggregation, curation, and analyses. Collectively …
bioNerDS: exploring bioinformatics' database and software use through literature mining
Background Biology-focused databases and software define bioinformatics and their use is
central to computational biology. In such a complex and dynamic field, it is of interest to …
central to computational biology. In such a complex and dynamic field, it is of interest to …
Tools and data services registry: a community effort to document bioinformatics resources
Life sciences are yielding huge data sets that underpin scientific discoveries fundamental to
improvement in human health, agriculture and the environment. In support of these …
improvement in human health, agriculture and the environment. In support of these …
A survey of bioinformatics database and software usage through mining the literature
Computer-based resources are central to much, if not most, biological and medical research.
However, while there is an ever expanding choice of bioinformatics resources to use …
However, while there is an ever expanding choice of bioinformatics resources to use …
BioDEAL: community generation of biological annotations
Background Publication databases in biomedicine (eg, PubMed, MEDLINE) are growing
rapidly in size every year, as are public databases of experimental biological data and …
rapidly in size every year, as are public databases of experimental biological data and …
Improving links between literature and biological data with text mining: a case study with GEO, PDB and MEDLINE
High-throughput experiments and bioinformatics techniques are creating an exploding
volume of data that are becoming overwhelming to keep track of for biologists and …
volume of data that are becoming overwhelming to keep track of for biologists and …
Integration of open access literature into the RCSB Protein Data Bank using BioLit
A Prlić, MA Martinez, D Dimitropoulos, B Beran… - BMC …, 2010 - Springer
Background Biological data have traditionally been stored and made publicly available
through a variety of on-line databases, whereas biological knowledge has traditionally been …
through a variety of on-line databases, whereas biological knowledge has traditionally been …
Utopia documents: linking scholarly literature with research data
TK Attwood, DB Kell, P McDermott, J Marsh… - …, 2010 - academic.oup.com
Motivation: In recent years, the gulf between the mass of accumulating-research data and
the massive literature describing and analyzing those data has widened. The need for …
the massive literature describing and analyzing those data has widened. The need for …
[PDF][PDF] Building the scientific knowledge mine (SciKnowMine): A community-driven framework for text mining tools in direct service to biocuration
C Ramakrishnan, WA Baumgartner Jr… - New Challenges For …, 2010 - academia.edu
Although there exist many high-performing text-mining tools to address literature biocuration
(populating biomedical databases from the published literature), the challenge of delivering …
(populating biomedical databases from the published literature), the challenge of delivering …
Automatic categorization of diverse experimental information in the bioscience literature
R Fang, G Schindelman, KV Auken, J Fernandes… - BMC …, 2012 - Springer
Background Curation of information from bioscience literature into biological knowledge
databases is a crucial way of capturing experimental information in a computable form …
databases is a crucial way of capturing experimental information in a computable form …