Complication Prediction after Esophagectomy with Machine Learning.

Esophageal cancer can be treated effectively with esophagectomy; however, the postoperative complication rate is high. In this paper, we study to what extent machine learning methods can predict anastomotic leakage and pneumonia up to two days in advance. We use a dataset with 417 patients who underwent esophagectomy between 2011 and 2021. The dataset contains multimodal temporal information, specifically, laboratory results, vital signs, thorax images, and preoperative patient characteristics. The best models scored mean test set AUROCs of 0.87 and 0.82 for leakage 1 and 2 days ahead, respectively. For pneumonia, this was 0.74 and 0.61 for 1 and 2 days ahead, respectively. We conclude that machine learning models can effectively predict anastomotic leakage and pneumonia after esophagectomy.

Accurate and Reliable Classification of Unstructured Reports on Their Diagnostic Goal Using BERT Models.

Understanding the diagnostic goal of medical reports is valuable information for understanding patient flows. This work focuses on extracting the reason for taking an MRI scan of Multiple Sclerosis (MS) patients using the attached free-form reports: Diagnosis, Progression or Monitoring. We investigate the performance of domain-dependent and general state-of-the-art language models and their alignment with domain expertise. To this end, eXplainable Artificial Intelligence (XAI) techniques are used to acquire insight into the inner workings of the model, which are verified on their trustworthiness. The verified XAI explanations are then compared with explanations from a domain expert, to indirectly determine the reliability of the model. BERTje, a Dutch Bidirectional Encoder Representations from Transformers (BERT) model, outperforms RobBERT and MedRoBERTa.nl in both accuracy and reliability. The latter model (MedRoBERTa.nl) is a domain-specific model, while BERTje is a generic model, showing that domain-specific models are not always superior. Our validation of BERTje in a small prospective study shows promising results for the potential uptake of the model in a practical setting.

Radiology report generation for proximal femur fractures using deep classification and language generation models.

Proximal femur fractures represent a major health concern, and substantially contribute to the morbidity of elderly. Correct classification and diagnosis of hip fractures has a significant impact on mortality, costs and hospital stay. In this paper, we present a method and empirical validation for automatic subclassification of proximal femur fractures and Dutch radiological report generation that does not rely on manually curated data. The fracture classification model was trained on 11,000 X-ray images obtained from 5000 electronic health records in a general hospital. To generate the Dutch reports, we first trained an embedding model on 20,000 radiological reports of pelvic region fractures, and used its embeddings in the report generation model. We trained the report generation model on the 5000 radiological reports associated with the fracture cases. Our report generation model is on par with state-of-the-art in terms of BLEU and ROUGE scores. This is promising, because in contrast to those earlier works, our approach does not require manual preprocessing of either images or the reports. This boosts the applicability of automatic clinical report generation in practice. A quantitative and qualitative user study among medical students found no significant difference in provenance of real and generated reports. A qualitative, in-depth clinical relevance study with medical domain experts showed that from a human perspective the quality of the generated reports approximates the quality of the original reports and highlights challenges in creating sufficiently detailed and versatile training data for automatic radiology report generation.

Automatic Process Comparison for Subpopulations: Application in Cancer Care.

Processes in organisations, such as hospitals, may deviate from the intended standard processes, due to unforeseeable events and the complexity of the organisation. For hospitals, the knowledge of actual patient streams for patient populations (e.g., severe or non-severe cases) is important for quality control and improvement. Process discovery from event data in electronic health records can shed light on the patient flows, but their comparison for different populations is cumbersome and time-consuming. In this paper, we present an approach for the automatic comparison of process models that were extracted from events in electronic health records. Concretely, we propose comparing processes for different patient populations by cross-log conformance checking, and standard graph similarity measures obtained from the directed graph underlying the process model. We perform a user study with 20 participants in order to obtain a ground truth for similarity of process models. We evaluate our approach on two data sets, the publicly available MIMIC database with the focus on different cancer patients in intensive care, and a database on breast cancer patients from a Dutch hospital. In our experiments, we found average fitness to be a good indicator for visual similarity in the ZGT use case, while the average precision and graph edit distance are strongly correlated with visual impression for cancer process models on MIMIC. These results are a call for further research and evaluation for determining which similarity or combination of similarities is needed in which type of process model comparison.

Post-Structuring Radiology Reports of Breast Cancer Patients for Clinical Quality Assurance.

Hospitals often set protocols based on well defined standards to maintain the quality of patient reports. To ensure that the clinicians conform to the protocols, quality assurance of these reports is needed. Patient reports are currently written in free-text format, which complicates the task of quality assurance. In this paper, we present a machine learning based natural language processing system for automatic quality assurance of radiology reports on breast cancer. This is achieved in three steps: we i) identify the top-level structure (headings) of the report, ii) classify the report content into the top-level headings, and iii) convert the free-text detailed findings in the report to a semi-structured format (post-structuring). Top level structure and content of report were predicted with an F1 score of 0.97 and 0.94, respectively, using Support Vector Machine (SVM) classifiers. For automatic structuring, our proposed hierarchical Conditional Random Field (CRF) outperformed the baseline CRF with an F1 score of 0.78 versus 0.71. The determined structure of the report is represented in semi-structured XML format of the free-text report, which helps to easily visualize the conformance of the findings to the protocols. This format also allows easy extraction of specific information for other purposes such as search, evaluation, and research.