Developing a Robust Part-of-Speech Tagger for Biomedical Text

By Yoshimasa Tsuruoka, Yuka Tateishi, Jin-Dong Kim, Tomoko Ohta, John McNaught, Sophia Ananiadou, Junichi Tsujii. Panhellenic Conference on Informatics, 2005

536 citations recorded by the source corpus.

Subfields: Artificial Intelligence, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/f14e2659103392d63a266effe9e587e0586097b7

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Citations in the corpus

Construction of an annotated corpus to support biomedical information extraction (2009, methodology): “Prior to annotation, chunks are automatically identified by the GENIA tagger [55].”
ScispaCy: Fast and Robust Models for Biomedical Natural Language Processing (2019, methodology): “ger (Tsuruoka et al., 2005; Tsuruoka and Tsujii, 2005), or phrase structure parsers such as those presented in McClosky and Charniak (2008) typically do not make use of new research innovations such as word representations or neural networks.”
Nested Named Entity Recognition (2009, methodology): “The GENIA tagger (Tsuruoka et al., 2005) achieves 98.49% accuracy using the same train/test split.”
Getting More Out of Biomedical Documents with GATE's Full Lifecycle Open Source Text Analytics (2013, background): “…editor [24], the OWLIM semantic repository [25], the Weka machine learning library [26], the Lingpipe , 36 . text processing, which are summarised in Figure and OpenNLP , 37 . language analysis pipelines, ABNER [27], MetaMap [28], GENIA [29], AbGene [30], BioTagger [31], LinkedLifeData , 13 .”
Uncertainty in big data analytics: survey, opportunities, and challenges (2019, background): “It has been reported uncertainty and not sufficient tagging accuracy when trained taggers from Treebank corpus and applied to biomedical data [74].”
Extracting Drug-Drug Interactions with Attention CNNs (2017, methodology): “As preprocessing, we performed word segmentation of the input sentences using the GE-NIA tagger (Tsuruoka et al., 2005).”
Semi-supervised Multitask Learning for Sequence Labeling (2017, methodology): “Following Tsuruoka et al. (2005), we use the same 210-document test set.”
Distributional Semantics Resources for Biomedical Text Processing (2013, methodology): “The extracted text was then segmented into sentences using the GENIA sentence splitter3 and tokenized using a custom tokenization script replicating the tokenizer used in the GENIA Tagger (Tsuruoka et al., 2005).”
From POS tagging to dependency parsing for biomedical event extraction (2018, methodology): “The final row includes published results of the GENIA POS tagger (Tsuruoka et al., 2005), when trained on 90% of the GENIA corpus (cf.”