scholarly journals Semi-Supervised Noisy Label Learning for Chinese Medical Named Entity Recognition

2021 ◽  
pp. 1-10
Author(s):  
Zhucong Li ◽  
Zhen Gan ◽  
Baoli Zhang ◽  
Yubo Chen ◽  
Jing Wan ◽  
...  
Keyword(s):  
Hybrid System ◽  
Named Entity Recognition ◽  
Entity Recognition ◽  
Final Test ◽  
Named Entity ◽  
The Core ◽  
Category Labels ◽  
Adversarial Training ◽  
Core Idea ◽  
The Impact

Abstract This paper describes our approach for the Chinese Medical named entity recognition(MER) task organized by the 2020 China conference on knowledge graph and semantic computing(CCKS) competition. In this task, we need to identify the entity boundary and category labels of six entities from Chinese electronic medical record(EMR). We construct a hybrid system composed of a semi-supervised noisy label learning model based on adversarial training and a rule postprocessing module. The core idea of the hybrid system is to reduce the impact of data noise by optimizing the model results. Besides, we use post-processing rules to correct three cases of redundant labeling, missing labeling, and wrong labeling in the model prediction results. Our method proposed in this paper achieved strict criteria of 0.9156 and relax criteria of 0.9660 on the final test set, ranking first.

Assessing the Impact of Contextual Embeddings for Portuguese Named Entity Recognition

2019 ◽  
Author(s):  
Joaquim Santos ◽  
Bernardo Consoli ◽  
Cicero dos Santos ◽  
Juliano Terra ◽  
Sandra Collonini ◽  
...  
Keyword(s):  
Named Entity Recognition ◽  
Entity Recognition ◽  
Named Entity ◽  
The Impact

The Impact of Domain-Specific Pre-Training on Named Entity Recognition Tasks in Materials Science

2021 ◽  
Author(s):  
Nicholas Walker ◽  
Amalie Trewartha ◽  
Haoyan Huo ◽  
Sanghoon Lee ◽  
Kevin Cruse ◽  
...  
Keyword(s):  
Materials Science ◽  
Named Entity Recognition ◽  
Entity Recognition ◽  
Named Entity ◽  
Domain Specific ◽  
The Impact

scholarly journals WikiPathways: connecting communities

2020 ◽  
Vol 49 (D1) ◽  
pp. D613-D621 ◽  
Author(s):  
Marvin Martens ◽  
Ammar Ammar ◽  
Anders Riutta ◽  
Andra Waagmeester ◽  
Denise N Slenter ◽  
...  
Keyword(s):  
Named Entity Recognition ◽  
Open Science ◽  
Entity Recognition ◽  
Biological Knowledge ◽  
Pathway Database ◽  
External Resources ◽  
The Road ◽  
Named Entity ◽  
Pathway Models ◽  
Core Idea

Abstract WikiPathways (https://www.wikipathways.org) is a biological pathway database known for its collaborative nature and open science approaches. With the core idea of the scientific community developing and curating biological knowledge in pathway models, WikiPathways lowers all barriers for accessing and using its content. Increasingly more content creators, initiatives, projects and tools have started using WikiPathways. Central in this growth and increased use of WikiPathways are the various communities that focus on particular subsets of molecular pathways such as for rare diseases and lipid metabolism. Knowledge from published pathway figures helps prioritize pathway development, using optical character and named entity recognition. We show the growth of WikiPathways over the last three years, highlight the new communities and collaborations of pathway authors and curators, and describe various technologies to connect to external resources and initiatives. The road toward a sustainable, community-driven pathway database goes through integration with other resources such as Wikidata and allowing more use, curation and redistribution of WikiPathways content.

Biomedical Named Entity Recognition via Knowledge Guidance and Question Answering

2021 ◽  
Vol 2 (4) ◽  
pp. 1-24
Author(s):  
Pratyay Banerjee ◽  
Kuntal Kumar Pal ◽  
Murthy Devarakonda ◽  
Chitta Baral
Keyword(s):  
Question Answering ◽  
State Of The Art ◽  
Named Entity Recognition ◽  
Entity Recognition ◽  
Neural Models ◽  
Named Entity ◽  
Input Text ◽  
The Impact ◽  
Biomedical Named Entity Recognition ◽  
Entity Class

In this work, we formulated the named entity recognition (NER) task as a multi-answer knowledge guided question-answer task (KGQA) and showed that the knowledge guidance helps to achieve state-of-the-art results for 11 of 18 biomedical NER datasets. We prepended five different knowledge contexts—entity types, questions, definitions, and examples—to the input text and trained and tested BERT-based neural models on such input sequences from a combined dataset of the 18 different datasets. This novel formulation of the task (a) improved named entity recognition and illustrated the impact of different knowledge contexts, (b) reduced system confusion by limiting prediction to a single entity-class for each input token (i.e., B , I , O only) compared to multiple entity-classes in traditional NER (i.e., B entity 1, B entity 2, I entity 1, I , O ), (c) made detection of nested entities easier, and (d) enabled the models to jointly learn NER-specific features from a large number of datasets. We performed extensive experiments of this KGQA formulation on the biomedical datasets, and through the experiments, we showed when knowledge improved named entity recognition. We analyzed the effect of the task formulation, the impact of the different knowledge contexts, the multi-task aspect of the generic format, and the generalization ability of KGQA. We also probed the model to better understand the key contributors for these improvements.

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