Annotate Biomedical Documents

Review publications, index your documents, or create text corpora

Help us understand your needs with this survey


tagtog helps you speed up your biocuration workflow. It's easy to get started:

  1. Import Documents

    Import articles by simply submitting their PubMed PMID or PubMedCentral PMCID, or upload any plain text file or other formats.

  2. Annotate, Manually and Automatically

    Use the web interface to manually annotate entities, relations, or label documents. Turn on the text mining and our machines will assist you to annotate your documents automatically. At any time you can correct any missing or wrong automatic annotation. We will learn from your feedback to have it right next time.

  3. Get the Results

    Download the document annotations in various formats: JSON, XML, or TSV. Import more documents and immediately get the new results.


  • On the Web

    Nothing to install. Just use your favorite browser.

  • Annotation Editor

    Use our web editor to annotate entities (e.g. proteins or subcellular locations), relations (e.g. diseases caused by mutations), and to classify documents. As easy as selecting text with your mouse!

  • Full-Text Articles (Tons of them)

    Import abstracts or full texts. Decide to focus on specific sections (e.g. Results), leave out others (e.g. Introduction), and annotate the captions of figures and tables.

    Work with millions of documents with ease as everything is handled on the cloud. Ready for Big Data.

  • Machine Learning & Interactive Interface

    You can opt for automatic annotations and accept or reject them on an individual basis. Your feedback is used to re-train our machines thus obtaining better results.

  • Team Collaboration

    Invite other users to help you. You will all work with the same information for seamless integration.

  • Entity Normalization

    Link the annotated entities to unique ids from standard databases such as UniProt or ChEBI.

    You can also upload your own dictionaries to map the annotations to the ids of your internal database.


FlyBase is an online bioinformatics database and the most recognized repository of genetic and molecular data for the insect family Drosophilidae. Read the published paper of our collaboration.
Interested? Start now!