https://github.com/lingluodlut/BioNER-Progress

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).
https://github.com/lingluodlut/BioNER-Progress

Last synced: about 1 month ago
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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).

• Host: GitHub
• URL: https://github.com/lingluodlut/BioNER-Progress
• Owner: lingluodlut
• License: apache-2.0
• Created: 2019-09-24T00:45:41.000Z (about 5 years ago)
• Default Branch: master
• Last Pushed: 2021-02-23T16:03:05.000Z (almost 4 years ago)
• Last Synced: 2024-08-03T02:04:09.749Z (4 months ago)
• Homepage:
• Size: 436 KB
• Stars: 198
• Watchers: 8
• Forks: 41
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

Awesome Lists containing this project

• Awesome-Paper-List - Biomedical NER - lingluodlut-be8abf)  (Natural Language Processing)

README

        
# 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](/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