DBMI, University of Pittsburgh

based on annotator.js, an annotation framework enable user account and annotation permission management and templating annotation plugin in biomedical domain.

Serve form of evidence type related questions for various type of high level types (ex. DDI clinical trial, Experiments, Case Report, etc))

Named Entity Recognition (NER) engine for biomedical text

A web portal for the DIKB MP evidence base

migrates from swat-4-med-safety/SW-DDI-catalog/drug-drug-interactions

A suite of programs that implement the DIKB principals of representing drug drug interaction evidence and knowledge.

extract diagnostic information from pathology documents and save the output as TSV file

Information Extraction from Radiology Report

OpenSlide Whole Slide Image Server

SlideTutor curriculum: knowledge bases, configurations, cases, examples etc.

The Ontology Development and Information Extraction(ODIE) framework is a NLP workbench to run various UIMA pipelines coupled with different ontologies and terminologies.

SlideTutor is a new kind of medical educational system that provides a virtual appreticeship simulated environment for learning accurate pathologic diagnosis and reporting can be used by pathology residents, fellows, and practicing pathologists uses “virtual slides” that you can examine just as you would look at cases under your microscope provi…

DomainBuilder is a tool that attempts to automate and streamline the task of authoring tutor cases, creating a semantic representation of domain knowledge as well as validation for SlideTutor ITS. Once completed, this tool will allow doctors to create curriculum for their students which goes beyond simple slide sets.

SlideViwer is a high level java API that describes the behaviour of a generic digital slide image viewer.

configuration for dockerize project iDIA-Rules

This repository contains the Java and Drools files necessary to work with the "Individualized Drug Interaction Alerts (iDIA)" project.

The interactive consensus degenerate primer design program ported to use modern Javascript libraries

Code to prototype the new Drug Interaction Knowledge Base

Migration of EDRN into REDCap

Information Extraction for National Mesothelioma Virtual Bank

This code extracts the terms from i2b2 and converts them to a dictionary for the xmeso NLP process.