The present invention provides a data mining framework for mining high-quality structured clinical information. The data mining framework includes a data miner that mines medical information from a computerized patient record (CPR) based on domain-specific knowledge contained in a knowledge base. The data miner includes components for extracting information from the CPR, combining all available evidence in a principled fashion over time, and drawing inferences from this combination process. The mined medical information is stored in a structured CPR which can be a data warehouse.