BioNER-Progress

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BioNER-Progress

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This repository aims to track the progress in BioNER and give a related paper list and an overview of the state-of-the-art (SOTA).

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# BioNER Progress #
## Introduction ##
**Named entity recognition (NER)** is the problem of finding references to entities (mentions) in natural language text, and labeling them with their location and type. In biomedical domain, **biomedical NER (BioNER)** focuses on the biomedical entities like gene, protein, chemical, disease, mutation, etc.

![image](https://raw.githubusercontent.com/lingluodlut/BioNER-Progress/master/image/bioner.png)

This repository aims to track the progress in BioNER and give a related paper list and an overview of the state-of-the-art (SOTA).
## Contents ##
- [Papers](BioNER_paper.md)
    - Survey Papers
    - Dictionary-based Methods
    - Rule-based Methods
    - Machine Learning-based Methods
        -  SVM-based Methods
        -  HMM-based Methods
        -  MEMM-based Mehtods
        -  CRF-based Methods
        -  Neural Network-based Methods
        -  Others

- [SOTA](BioNER_sota.md)
    - Chemical NER
        -  CHEMDNER
        -  CDR-Chemical
    - Disease NER
        -  NCBI-Disease
        -  CDR-Disease
    - Gene/Protein NER
        -  BC2GM
        -  JNLPBA
    - Mutation NER
        -  MutationFinder
        -  tmVar
    - Species NER
        -  LINNAEUS

BioNER-Progress

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