An important task for Information Extraction from Microblogs is Named Entity Recognition (NER) that extracts mentions of real-world entities from microblog messages and meta-information like entity type for better entity characterization. A lot of microblog NER systems have rightly sought to prioritize modeling the non-literary nature of microblog text. These systems are trained on offline static datasets and extract a combination of surface-level features – orthographic, lexical, and semantic – from individual messages for noisy text modeling and entity extraction. But given the constantly evolving nature of microblog streams, detecting all entity mentions from such varying yet limited context in short messages remains a difficult problem to generalize. In this paper, we propose the NER Globalizer pipeline better suited for NER on microblog streams. It characterizes the isolated message processing by existing NER systems as modeling local contextual embeddings, where learned knowledge from the immediate context of a message is used to suggest seed entity candidates. Additionally, it recognizes that messages within a microblog stream are topically related and often repeat mentions of the same entity. This suggests building NER systems that go beyond localized processing. By leveraging occurrence mining, the proposed system therefore follows up traditional NER modeling by extracting additional mentions of seed entity candidates that were previously missed. Candidate mentions are separated into well-defined clusters which are then used to generate a pooled global embedding drawn from the collective context of the candidate within a stream. The global embeddings are utilized to separate false positives from entities whose mentions are produced in the final NER output. Our experiments show that the proposed NER system exhibits superior effectiveness on multiple NER datasets with an average Macro F1 improvement of 47.04% over the best NER baseline while adding only a small computational overhead.
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Automated Construction of Lexicons to Improve Depression Screening with Text Messages
Given that depression is one of the most prevalent mental illnesses, developing effective and unobtrusive diagnosis tools is of great importance. Recent work that screens for depression with text messages leverage models relying on lexical category features. Given the colloquial nature of text messages, the performance of these models may be limited by formal lexicons. We thus propose a strategy to automatically construct alternative lexicons that contain more relevant and colloquial terms. Specifically, we generate 36 lexicons from fiction, forum, and news corpuses. These lexicons are then used to extract lexical category features from the text messages. We utilize machine learning models to compare the depression screening capabilities of these lexical category features. Out of our 36 constructed lexicons, 14 achieved statistically significantly higher average F1 scores over the pre-existing formal lexicon and basic bag-of-words approach. In comparison to the pre-existing lexicon, our best performing lexicon increased the average F1 scores by 10%. We thus confirm our hypothesis that less formal lexicons can improve the performance of classification models that screen for depression with text messages. By providing our automatically constructed lexicons, we aid future machine learning research that leverages less formal text.
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- Award ID(s):
- 1852498
- NSF-PAR ID:
- 10399241
- Date Published:
- Journal Name:
- IEEE Journal of Biomedical and Health Informatics
- ISSN:
- 2168-2194
- Page Range / eLocation ID:
- 1 to 8
- Format(s):
- Medium: X
- Sponsoring Org:
- National Science Foundation
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Abstract Background Annotating scientific literature with ontology concepts is a critical task in biology and several other domains for knowledge discovery. Ontology based annotations can power large-scale comparative analyses in a wide range of applications ranging from evolutionary phenotypes to rare human diseases to the study of protein functions. Computational methods that can tag scientific text with ontology terms have included lexical/syntactic methods, traditional machine learning, and most recently, deep learning.
Results Here, we present state of the art deep learning architectures based on Gated Recurrent Units for annotating text with ontology concepts. We use the Colorado Richly Annotated Full Text Corpus (CRAFT) as a gold standard for training and testing. We explore a number of additional information sources including NCBI’s BioThesauraus and Unified Medical Language System (UMLS) to augment information from CRAFT for increasing prediction accuracy. Our best model results in a 0.84 F1 and semantic similarity.
Conclusion The results shown here underscore the impact for using deep learning architectures for automatically recognizing ontology concepts from literature. The augmentation of the models with biological information beyond that present in the gold standard corpus shows a distinct improvement in prediction accuracy.
- Free Publicly Accessible Full Text
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Accepted Manuscript1.0
- Journal Article:
- https://doi.org/10.1109/JBHI.2022.3203345
