Methods and systems for summarizing densely annotated medical reports

A method comprising:

• selecting a category from a plurality of pre-determined medical report categories;
• determining a plurality of training parameters based on the category;
• selecting a training data pair, wherein the training data pair comprises a medical report and a list of ground truth entity annotations;
• mapping the medical report to a list of entity classifications using an entity recognition model;
• determining a base loss for each entity classification in the list of entity classifications by comparing each entity classification with a corresponding ground truth entity annotation from the list of ground truth entity annotations;
• adjusting the base loss for each entity classification based on the plurality of training parameters to produce a list of adjusted losses;
• updating parameters of the entity recognition model based on the list of adjusted losses;
• and
• storing the entity recognition model in an entity recognition model library.

A system for automatically summarizing medical reports, the system comprising:

• an electronic medical records database;
• and
• a patient summary system communicatively coupled to the electronic medical records database, the patient summary system comprising:
• instructions stored in non-transitory memory of the patient summary system;
• and
• a processor, that when executing the instructions causes the patient summary system to:
• access a medical report for a patient from the electronic medical records database;
• classify the medical report into a category of a plurality of pre-determined categories;
• match the medical report with an entity recognition model from a library of entity recognition models;
• identify a plurality of named entities in the medical report using the entity recognition model;
• refine the plurality of named entities to produce a summary of the medical report;
• and
• display the summary of the medical report via a display device.