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Disease name recognition software tools and databases | Bio-entity identification

 


Despite the central role of diseases in biomedical research, there have been much fewer attempts to automatically determine which diseases are mentioned in a text. Source text: Leaman et al., 2013.

EFO
Terminology

EFO Experimental Factor Ontology

An application ontology driven by the annotation and query needs of samples in…

An application ontology driven by the annotation and query needs of samples in omics datasets. EFO provides an integration framework for ontologies and combines parts of several biological ontologies…

BC5CIDTask
Desktop

BC5CIDTask

Utilizes simple yet effective linguistic features to extract relations with…

Utilizes simple yet effective linguistic features to extract relations with maximum entropy models. This chemical-induced disease (CID) relation extraction tool consisted of two specific subtasks:…

AuDis
Desktop

AuDis

A system for disease mention recognition and normalization in biomedical texts.…

A system for disease mention recognition and normalization in biomedical texts. AuDis utilizes an order two conditional random fields model. To optimize the results, we customize several…

DNorm
Desktop

DNorm

An automated method for determining which diseases are mentioned in biomedical…

An automated method for determining which diseases are mentioned in biomedical text, the task of disease normalization. DNorm is a high-performing and mathematically principled framework for learning…

NCBI disease…
Dataset

NCBI disease corpus

A collection of 793 PubMed abstracts fully annotated at the mention and concept…

A collection of 793 PubMed abstracts fully annotated at the mention and concept level to serve as a research resource for the biomedical natural language processing community. Each PubMed abstract…

DiseaseExtract
Dataset

DiseaseExtract

Allows automated recognition of disease mentions, and studied the effect of…

Allows automated recognition of disease mentions, and studied the effect of various techniques in improving the normalization results based on the dictionary lookup approach. DiseaseExtract includes…

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