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J Digit Imaging. 2019 Aug 8. doi: 10.1007/s10278-019-00251-x. [Epub ahead of print]

Automatic Staging of Cancer Tumors Using AIM Image Annotations and Ontologies.

Author information

1
Department of Computer Science, University of São Paulo, São Carlos, SP, Brazil.
2
Universidad Nacional de San Agustín de Arequipa, Arequipa, Peru.
3
Department of Biomedical Data Science, Radiology, and Medicine (Biomedical Informatics), Stanford University, Stanford, CA, USA.
4
Department of Computer Science, University of São Paulo, São Carlos, SP, Brazil. dilvan@usp.br.

Abstract

A second opinion about cancer stage is crucial when clinicians assess patient treatment progress. Staging is a process that takes into account description, location, characteristics, and possible metastasis of tumors in a patient. It should follow standards, such as the TNM Classification of Malignant Tumors. However, in clinical practice, the implementation of this process can be tedious and error prone. In order to alleviate these problems, we intend to assist radiologists by providing a second opinion in the evaluation of cancer stage. For doing this, we developed a TNM classifier based on semantic annotations, made by radiologists, using the ePAD tool. It transforms the annotations (stored using the AIM format), using axioms and rules, into AIM4-O ontology instances. From then, it automatically calculates the liver TNM cancer stage. The AIM4-O ontology was developed, as part of this work, to represent annotations in the Web Ontology Language (OWL). A dataset of 51 liver radiology reports with staging data, from NCI's Genomic Data Commons (GDC), were used to evaluate our classifier. When compared with the stages attributed by physicians, the classifier stages had a precision of 85.7% and recall of 81.0%. In addition, 3 radiologists from 2 different institutions manually reviewed a random sample of 4 of the 51 records and agreed with the tool staging. AIM4-O was also evaluated with good results. Our classifier can be integrated into AIM aware imaging tools, such as ePAD, to offer a second opinion about staging as part of the cancer treatment workflow.

KEYWORDS:

Cancer staging; Image annotations; Reasoning; SWRL; TNM; ePAD

PMID:
31396778
DOI:
10.1007/s10278-019-00251-x

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