Hierarchical Deep Learning Ensemble to Automate the Classification of Breast Cancer Pathology Reports by ICD-O Topography

Like most global cancer registries, the National Cancer Registry in South Africa employs expert human coders to label pathology reports using appropriate International Classification of Disease for Oncology (ICD-O) codes spanning 42 different cancer types. The annotation is extensive for the large volume of cancer pathology reports the registry receives annually from public and private sector institutions. This manual process, coupled with other challenges results in a significant 4-year lag in reporting of annual cancer statistics in South Africa. We present a hierarchical deep learning ensemble method incorporating state of the art convolutional neural network models for the automatic labelling of 2201 de-identified, free text pathology reports, with appropriate ICD-O breast cancer topography codes across 8 classes. Our results show an improvement in primary site classification over the state of the art CNN model by greater than 14% for F1 micro and 55% for F1 macro scores. We demonstrate that the hierarchical deep learning ensemble improves on state-of-the-art models for ICD-O topography classification in comparison to a flat multiclass model for predicting ICD-O topography codes for pathology reports.

Investigating similarities and differences between South African and Sierra Leonean school outcomes using Machine Learning

Available or adequate information to inform decision making for resource allocation in support of school improvement is a critical issue globally. In this paper, we apply machine learning and education data mining techniques on education big data to identify determinants of high schools' performance in two African countries: South Africa and Sierra Leone. The research objective is to build predictors for school performance and extract the importance of different community and school-level features. We deploy interpretable metrics from machine learning approaches such as SHAP values on tree models and odds ratios of LR to extract interactions of factors that can support policy decision making. Determinants of performance vary in these two countries, hence different policy implications and resource allocation recommendations.