A knowledge‐driven approach to extract disease‐related biomarkers from the literature

A Bravo, M Cases, N Queralt-Rosinach… - BioMed research …, 2014 - Wiley Online Library
The biomedical literature represents a rich source of biomarker information. However, both
the size of literature databases and their lack of standardization hamper the automatic …

Analysis of biological processes and diseases using text mining approaches

M Krallinger, F Leitner, A Valencia - Bioinformatics Methods in Clinical …, 2010 - Springer
A number of biomedical text mining systems have been developed to extract biologically
relevant information directly from the literature, complementing bioinformatics methods in the …

Mining the literature and large datasets

J Labaer - Nature Biotechnology, 2003 - nature.com
Harvard recently developed a freely accessible automated literaturemining tool, termed
MedGene, that comprehensively summarizes the relationships among over 50,000 named …

DTMiner: identification of potential disease targets through biomedical literature mining

D Xu, M Zhang, Y Xie, F Wang, M Chen, KQ Zhu… - …, 2016 - academic.oup.com
Motivation: Biomedical researchers often search through massive catalogues of literature to
look for potential relationships between genes and diseases. Given the rapid growth of …

BioLitMine: advanced mining of biomedical and biological literature about human genes and genes from major model organisms

Y Hu, V Chung, A Comjean, J Rodiger… - G3: Genes …, 2020 - academic.oup.com
The accumulation of biological and biomedical literature outpaces the ability of most
researchers and clinicians to stay abreast of their own immediate fields, let alone a broader …

Mining the biomedical literature in the genomic era: an overview

H Shatkay, R Feldman - Journal of computational biology, 2003 - liebertpub.com
The past decade has seen a tremendous growth in the amount of experimental and
computational biomedical data, specifically in the areas of genomics and proteomics. This …

Text-mining solutions for biomedical research: enabling integrative biology

D Rebholz-Schuhmann, A Oellrich… - Nature Reviews …, 2012 - nature.com
In response to the unbridled growth of information in literature and biomedical databases,
researchers require efficient means of handling and extracting information. As well as …

Text-mining approaches in molecular biology and biomedicine

M Krallinger, RAA Erhardt, A Valencia - Drug discovery today, 2005 - Elsevier
Biomedical articles provide functional descriptions of bioentities such as chemical
compounds and proteins. To extract relevant information using automatic techniques, text …

Facts from text: can text mining help to scale-up high-quality manual curation of gene products with ontologies?

R Winnenburg, T Wächter, C Plake… - Briefings in …, 2008 - academic.oup.com
The biomedical literature can be seen as a large integrated, but unstructured data
repository. Extracting facts from literature and making them accessible is approached from …

Biomedical literature mining: challenges and solutions in the 'omics' era

D Chaussabel - American Journal of Pharmacogenomics, 2004 - Springer
It is now obvious that the rate-limiting step in high throughput experimentation is neither data
acquisition nor analysis, but rather our ability to interpret data on a genome-wide scale …