Identifying incidental findings from radiology reports of trauma patients: An evaluation of automated feature representation methods
Trivedi G, Hong C, Dadashzadeh ER, Handzel RM, Hochheiser H, Visweswaran S. Identifying incidental findings from radiology reports of trauma patients: An evaluation of automated feature representation methods. International Journal of Medical Informatics. 2019 Sept 129; 81-7. DOI: 10.1016/j.ijmedinf.2019.05.021 PMID:31445293 PMCID: PMC 6717529
Radiologic imaging of trauma patients often uncovers findings that are unrelated to the trauma. These are termed as incidental findings and identifying them in radiology examination reports is necessary for appropriate follow-up. We developed and evaluated an automated pipeline to identify incidental findings at sentence and section levels in radiology reports of trauma patients.
We created an annotated dataset of 4,181 reports and investigated automated feature representations including traditional word and clinical concept (such as SNOMED CT) representations, as well as word and concept embeddings. We evaluated these representations by using them with traditional classifiers such as logistic regression and with deep learning methods such as convolutional neural networks (CNNs).
The best performance was observed using word embeddings with CNNs with F 1 scores of 0.66 and 0.52 at section and sentence levels respectively. The F 1 score was statistically significantly higher for sections compared to sentences (Wilcoxon; Z < 0.001, p < 0.05). Compared to using words alone, the addition of SNOMED CT concepts did not improve performance. At the sentence level, the F 1 score improved significantly from 0.46 to 0.52 when using pre-trained embeddings (Wilcoxon; Z < 0.001, p < 0.05).
The results show that the best performance was achieved by using embeddings with CNNs at both sentence and section levels. This provides evidence that such a pipeline is capable of accurately identifying incidental findings in radiology reports in an automated manner.