Auto-CORPus: A natural language processing tool for standardizing and reusing biomedical literature

T Beck, T Shorter, Y Hu, Z Li, S Sun… - Frontiers in Digital …, 2022 - frontiersin.org
To analyse large corpora using machine learning and other Natural Language Processing
(NLP) algorithms, the corpora need to be standardized. The BioC format is a community …

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 …

On expert curation and scalability: UniProtKB/Swiss-Prot as a case study

S Poux, CN Arighi, M Magrane, A Bateman… - …, 2017 - academic.oup.com
Motivation Biological knowledgebases, such as UniProtKB/Swiss-Prot, constitute an
essential component of daily scientific research by offering distilled, summarized and …

[HTML][HTML] SciLite: a platform for displaying text-mined annotations as a means to link research articles with biological data

A Venkatesan, JH Kim, F Talo, M Ide-Smith… - Wellcome open …, 2016 - ncbi.nlm.nih.gov
The tremendous growth in biological data has resulted in an increase in the number of
research papers being published. This presents a great challenge for scientists in searching …

MyMiner: a web application for computer-assisted biocuration and text annotation

D Salgado, M Krallinger, M Depaule, E Drula… - …, 2012 - academic.oup.com
Motivation: The exponential growth of scientific literature has resulted in a massive amount
of unstructured natural language data that cannot be directly handled by means of …

Textpresso Central: a customizable platform for searching, text mining, viewing, and curating biomedical literature

HM Müller, KM Van Auken, Y Li, PW Sternberg - BMC bioinformatics, 2018 - Springer
Background The biomedical literature continues to grow at a rapid pace, making the
challenge of knowledge retrieval and extraction ever greater. Tools that provide a means to …

BIRI: a new approach for automatically discovering and indexing available public bioinformatics resources from the literature

G de la Calle, M Garcia-Remesal, S Chiesa… - BMC …, 2009 - Springer
Background The rapid evolution of Internet technologies and the collaborative approaches
that dominate the field have stimulated the development of numerous bioinformatics …

Closing the computational biology 'knowledge gap': Spanish Wikipedia as a case study

N Sélem-Mojica, T Karakulak, A Anjum… - …, 2024 - academic.oup.com
Motivation Wikipedia is a vital open educational resource in computational biology. The
quality of computational biology coverage in English-language Wikipedia has improved …

Processing biological literature with customizable Web services supporting interoperable formats

R Rak, RT Batista-Navarro, J Carter, A Rowley… - Database, 2014 - academic.oup.com
Web services have become a popular means of interconnecting solutions for processing a
body of scientific literature. This has fuelled research on high-level data exchange formats …

Open sourcing ecological data

CS Parr - BioScience, 2007 - academic.oup.com
MD 21250. tor of the data, have a head start and be more likely to do the better job?
Informatics studies are often highly collaborative. Most likely the best people for such …