Thao Tran
2026
PrionNER: A Named Entity Recognition Dataset for Prion Disease Biomedical Literature
An Dao | Nhan Ly | Thao Tran | Yuji Matsumoto | Akiko Aizawa
BioNLP 2026
An Dao | Nhan Ly | Thao Tran | Yuji Matsumoto | Akiko Aizawa
BioNLP 2026
Prion diseases are rare, rapidly progressive, and fatal neurodegenerative disorders that remain difficult to diagnose, particularly in their early stages because of nonspecific clinical presentations. However, to our knowledge, there is no publicly available prion-disease-focused dataset designed to capture a broad range of clinically relevant entities from the biomedical literature. We introduce PrionNER, a manually annotated named entity recognition dataset for prion disease clinical information in PubMed abstracts. The current release comprises 317 abstracts, 2,943 sentences, and 6,955 text-bound entity annotations spanning 15 coarse-grained and 31 fine-grained clinically oriented entity types covering diseases, symptoms, diagnostics, findings, anatomy, treatments, and temporal and statistical evidence. Inter-annotator agreement reaches 81.78 exact-match F1, indicating strong annotation consistency. We benchmark supervised BERT baselines, W2NER, and zero-shot extractors on PrionNER. W2NER is the strongest supervised model, and Gemma-4-31B is the strongest zero-shot model, but the benchmark remains challenging, especially for structurally complex mentions and fine-grained clinically adjacent label distinctions. PrionNER provides a clinically grounded benchmark for prion-disease information extraction and supports research on rare-disease biomedical NLP under low-resource, fine-grained, and non-flat extraction conditions. The dataset, annotation guidelines, and evaluation scripts are available at https://github.com/daotuanan/PrionNER/
2022
CAMIO: A Corpus for OCR in Multiple Languages
Michael Arrigo | Stephanie Strassel | Nolan King | Thao Tran | Lisa Mason
Proceedings of the Thirteenth Language Resources and Evaluation Conference
Michael Arrigo | Stephanie Strassel | Nolan King | Thao Tran | Lisa Mason
Proceedings of the Thirteenth Language Resources and Evaluation Conference
CAMIO (Corpus of Annotated Multilingual Images for OCR) is a new corpus created by Linguistic Data Consortium to serve as a resource to support the development and evaluation of optical character recognition (OCR) and related technologies for 35 languages across 24 unique scripts. The corpus comprises nearly 70,000 images of machine printed text, covering a wide variety of topics and styles, document domains, attributes and scanning/capture artifacts. Most images have been exhaustively annotated for text localization, resulting in over 2.3M line-level bounding boxes. For 13 of the 35 languages, 1250 images/language have been further annotated with orthographic transcriptions of each line plus specification of reading order, yielding over 2.4M tokens of transcribed text. The resulting annotations are represented in a comprehensive XML output format defined for this corpus. The paper discusses corpus design and implementation, challenges encountered, baseline performance results obtained on the corpus for text localization and OCR decoding, and plans for corpus publication.