PMID: 30815153Mar 1, 2019Paper

Combine Factual Medical Knowledge and Distributed Word Representation to Improve Clinical Named Entity Recognition

AMIA ... Annual Symposium Proceedings
Yonghui WuWilliam R Hogan

Abstract

There has been an increasing interest in developing deep learning methods to recognize clinical concepts from narrative clinical text. Recently, several studies have reported that Recurrent Neural Networks (RNNs) outperformed traditional machine learning methods such as Conditional Random Fields (CRFs). Deep learning-based Named Entity Recognition (NER) systems often use statistical language models to learn word embeddings from unlabeled corpora. However, current word embedding methods have limitations to learn decent representations for low-frequency words. Medicine is a knowledge-extensive domain; existing medical knowledge has the potential to improve feature representations for less frequent yet important words. However, it is still not clear how existing medical knowledge can help deep learning models in clinical NER tasks. In this study, we integrated medical knowledge from the Unified Medical Language System with word embeddings trained from an unlabeled clinical corpus in RNNs for detection of problems, treatments and lab tests. We examined three different ways to generate medical knowledge features, including a dictionary lookup program, the KnowledgeMap system, and the MedLEE system. We also compared representing medi...Continue Reading

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.

Related Papers

AMIA ... Annual Symposium Proceedings
Yonghui WuHua Xu
Drug Safety : an International Journal of Medical Toxicology and Drug Experience
Xi YangYonghui Wu
BMC Medical Informatics and Decision Making
Zengjian LiuHua Xu
© 2022 Meta ULC. All rights reserved