Europe PubMed Central (Europe PMC) is an open access repository of life science research, including peer-reviewed journal articles and preprints. It contains over 41 million abstracts and 8.7 million full-text articles, adding over 1.7 million new articles annually. To facilitate information discovery and foster literature–data integration, Europe PMC has incorporated text-mining approaches into its workflows.  […]

We are excited to announce the recent release of metagenomics annotations for Europe PMC publications. Thanks to the machine learning framework of Dr. Maaly Nassar for the joint EMERALD project between Europe PMC and MGnify teams, recognising metagenomics key terms in literature can now provide detailed biome descriptions for unravelling microbial implications in a variety […]

This month, Europe PMC released a new version of SciLite, a powerful tool for highlighting annotations in life sciences publications. SciLite is powered by the Europe PMC annotation platform via the open annotation API, which provides access to over 1.3 billion annotations. Highlighting annotations in the text enables users to easily scan the article and […]

From algorithms to the bench Text-mining holds the promise of helping researchers to overcome information overload. It is a familiar premise: an avalanche of scientific knowledge is being produced and shared. Teaching machines to “read” might soon be the only manageable way to digest large amounts of information into useful facts. To extract bits of […]

Scientific communication does not stop at the moment of publication. Scientific discussions in the form of post-publication peer review can provide valuable insights for published articles, bring up an alternative research perspective, or even present updates for published research. At Europe PMC it’s part of our mission to support innovation in scientific publishing, and we […]

We are excited to announce the launch of Europe PMC Annotations API, which provides programmatic access to annotations text-mined from biomedical abstracts and open access full text articles. The Annotations API is a part of Europe PMC’s programmatic tools suit and is freely available on the Europe PMC website: https://europepmc.org/AnnotationsApi. The exponential growth in scientific […]

Manual curation is vital for maintaining quality information in biological databases. However, with the exponential growth in biological data this approach is both challenging and time consuming. We wanted to create a scalable and sustainable process which could complement manual curation.    We recently launched a new service – SciLite – that allows text-mined annotations to be […]

Europe PMC has added protein and chemical structures from Protein Data Bank (PDB) and ChEBI via the BioEntities tab. There are some amazing examples in this paper, which was a collaboration between scientists in America, the Netherlands and UK: ‘Supersite of immune vulnerability on the glycosylated face of HIV-1 envelope glycoprotein gp120’ The paper investigates […]