Pathology Report Informatiom Extraction Task

A Pathology Report Informatiom Extraction Task is a clinical document IE task that accepts pathology report.

• Example(s):
  • Primary Cancer Site IE, for primary cancer site.
  • Histological Grade Classification ID, for histological grade (morphological assessment of tumor biological characteristics).
  • …
• See: Clinical Study Protocol Document IE.

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References

2018

• (Gao et al., 2018) ⇒ Shang Gao, Michael T. Young, John X. Qiu, Hong-Jun Yoon, James B. Christian, Paul A. Fearn, Georgia D. Tourassi, and Arvind Ramanthan. (2018). “Hierarchical Attention Networks for Information Extraction from Cancer Pathology Reports.” In: Journal of the American Medical Informatics Association, 25(3).
  • QUOTE: ... Data for our analyses were obtained from 942 deidentified pathology reports collected by the National Cancer Institute Surveillance, Epidemiology, and End Results program. The HAN was implemented for 2 information extraction tasks: (1) primary site, matched to 12 International Classification of Diseases for Oncology topography codes (7 breast, 5 lung primary sites), and (2) histological grade classification, matched to G1–G4. Model performance metrics were compared to conventional machine learning (ML) approaches including naive Bayes, logistic regression, support vector machine, random forest, and extreme gradient boosting, and other DL models, including a recurrent neural network (RNN), a recurrent neural network with attention (RNN w/A), and a convolutional neural network. ...

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