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brat rapid annotation tool, is a free, open-source, web-based tool for text annotation visualisation and editing. brat is fully configurable and can support a wide variety of annotation tasks, including, for example: * entity mention ("named entity") an ...

Category Annotation

BioSimplify is an open source tool written in Java that introduces and facilitates the use of a novel model for sentence simplification tuned for automatic discourse analysis and information extraction (as opposed to sentence simplification for improving ...

This site, established by Bob Futrelle in January 2001, is to be a collection of resources and links to resources about all aspects of natural language processing (NLP) and in particular its use in information extraction from biology texts. It is a non-co ...

Category Online Community
BioInfer: Bio Information Extraction Resource

Biomedical Information Extraction Resource (BioInfer) is a public resource providing a manually annotated corpus and related resources for information extraction in the biomedical domain. The corpus contains sentences from abstracts of biomedical researc ...

Category Human Annotated

BioEnEx is a tool designed to annotate multiple biomedical entity types (i.e. genes/proteins, diseases, species, chemicals, etc) with high performance. It uses a first order CRF classifier. Separate feature sets are used for diseases and genes/proteins. F ...

This corpus originated from the BioCreAtIvE task 1A data set for named entity recognition of gene/protein names. We randomly selected 1000 sentences from this set and added additional annotation for interactions between genes/proteins. 173 sentences conta ...

Category Human Annotated

BADREX uses dynamically generated regular expressions to annotate term definition–term abbreviation pairs, and corefers unpaired acronyms and abbreviations back to their initial (or most recent) definition in the text. BADREX achieves precision and recall ...