Within the department nephrology, a biopsy is taken from patients for further research. This biopsy can be analyzed with three different methods:
- Light microscopy
- Electron microscopy
The analysis and the final diagnosis of the biopsy are documented in a pathology report. However, there is a suspicion that only light microscopy and immunofluorescence are required in making a diagnosis. In some cases, electron microscopy adds nothing to the process of making a diagnosis. There is demand for a decision supporting algorithm, which state a diagnosis, based on the text. Furthermore, this explainable algorithm makes the process of concluding such a diagnosis clear. In this way, certain characteristics of the kidneys can be extracted, which have led to a particular diagnosis. It can also show abnormalities in the decision making, in which human beings would decide otherwise.
Research question and tasks
The main research question is: “Is it possible for a predictive algorithm to get to the same diagnosis as a human being when analyzing nephrology pathology reports?”
- Design a text mining algorithm which states a diagnosis based on text
- Compare the text mining algorithm with the performance of nephrologists
- Exclude some medical details (e.g. electron microscopy) to see whether the algorithm still performs the same
The goal of this project is to design a text mining algorithm, which makes (with a fairly high accuracy) the same diagnosis as a nephrologist would when analyzing pathology reports.