Paper detail

A Methodology for Customizing Clinical Tests for Esophageal Cancer based on Patient Preferences

Tests for Esophageal cancer can be expensive, uncomfortable and can have side effects. For many patients, we can predict non-existence of disease with 100% certainty, just using demographics, lifestyle, and medical history information. Our objective is to devise a general methodology for customizing tests using user preferences so that expensive or uncomfortable tests can be avoided. We propose to use classifiers trained from electronic health records (EHR) for selection of tests. The key idea is to design classifiers with 100% false normal rates, possibly at the cost higher false abnormals. We compare Naive Bayes classification (NB), Random Forests (RF), Support Vector Machines (SVM) and Logistic Regression (LR), and find kernel Logistic regression to be most suitable for the task. We propose an algorithm for finding the best probability threshold for kernel LR, based on test set accuracy. Using the proposed algorithm, we describe schemes for selecting tests, which appear as features in the automatic classification algorithm, using preferences on costs and discomfort of the users. We test our methodology with EHRs collected for more than 3000 patients, as a part of project carried out by a reputed hospital in Mumbai, India. Kernel SVM and kernel LR with a polynomial kernel of degree 3, yields an accuracy of 99.8% and sensitivity 100%, without the MP features, i.e. using only clinical tests. We demonstrate our test selection algorithm using two case studies, one using cost of clinical tests, and other using "discomfort" values for clinical tests. We compute the test sets corresponding to the lowest false abnormals for each criterion described above, using exhaustive enumeration of 15 clinical tests. The sets turn out to different, substantiating our claim that one can customize test sets based on user preferences.