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 of environmental-, engineered- and host-associated phenomena. Using a mixture of a literature-based machine learning (ML) and natural language processing (NLP) approaches, terms pertinent to 16 novel metagenomics concepts were identified in Europe PMC literature. Those concepts cover entities related to biome sample and origin as well as metagenomics experimental methods, and are all available in the Europe PMC annotations platform. Check the table below to learn about these concepts (annotation types) and their descriptions.

Publications with the new annotations are searchable on Europe PMC using the search syntax (ANNOTATION_PROVIDER:”Metagenomics”). Entity types can be highlighted in the text of open access articles using the SciLite annotations tool.

Additionally, these annotations are available for programmatic access via Europe PMC search and annotation APIs. 

Explore metagenomics annotation types in Europe PMC and give us your feedback. Want to know more about Europe PMC annotation platform? Get in touch with annotations@europepmc.org.