NCBI: National Center for Biotechnology Information
[ ] TaggerOne (All-purpose tagger) : TaggerOne is a general toolkit for biomedical named entity recognition and normalization. As a machine learning system it is not entity-specific but does require training data.
[ ] tmChem (chemical tagger) : tmChem is an open-source software tool for identifying chemical names. tmChem achieved the highest performance in BioCreative CHEMDNER task (over 87% F-measure)
[ ] DNorm (disease tagger) : DNorm is the first technique to use machine learning to recognize and normalize disease names in biomedical text.
[ ] GNormPlus (gene tagger) : GNormPlus is an end-to-end system that handles both gene/protein name and identifier detection in biomedical literature, including gene/protein mentions, family names and domain names.
[ ] SR4GN (species tagger) : SR4GN is an open source tool for species recognition/disambiguation and is optimized for the Gene Normalization task.
[ ] tmVar (mutation tagger) : tmVar extracts a wide range of sequence variants in both protein and gene levels (e.g. substitution, deletion, etc) in HGVS formats.
[ ] SimConcept (text simplification) : SimConcept uses patterns to identify individual mentions from a composite named entity (e.g. SMAD 1, 5, and 8).
NCBI: National Center for Biotechnology Information
TaggerOne(All-purpose tagger) : TaggerOne is a general toolkit for biomedical named entity recognition and normalization. As a machine learning system it is not entity-specific but does require training data.tmChem(chemical tagger) : tmChem is an open-source software tool for identifying chemical names. tmChem achieved the highest performance in BioCreative CHEMDNER task (over 87% F-measure)DNorm(disease tagger) : DNorm is the first technique to use machine learning to recognize and normalize disease names in biomedical text.GNormPlus(gene tagger) : GNormPlus is an end-to-end system that handles both gene/protein name and identifier detection in biomedical literature, including gene/protein mentions, family names and domain names.tmVar(mutation tagger) : tmVar extracts a wide range of sequence variants in both protein and gene levels (e.g. substitution, deletion, etc) in HGVS formats.SimConcept(text simplification) : SimConcept uses patterns to identify individual mentions from a composite named entity (e.g. SMAD 1, 5, and 8).