Page History

...

Image annotations also require standards so that they can be read by different imaging disciplines along with the rest of the image data. caMicroscope will also be extended to include image annotation and markup features using the micro-Annotation and Image Markup (μ-AIM).

Integrated Query System

To make data comparable, it must first be collected in a structured fashion. For example, TCGA relies on Common Data Elements, which are the standard elements used to validate that structure TCGA clinical data. Second, data comparisons require common data standardsvocabularies. For example, when a tumor is described in a human or an animal, a data standard would require that the type of tumor match one of a discrete number of options using approved vocabulary , such as "brain"must be used to describe the tumor.

The Integrated Query System currently in development will serve as an archive of images from multiple imaging disciplines, shown below.Image Removedaccess a variety of data types, shown below, that reside in independent systems.

Image Added

Genomic Data

Will go in the Google genomics cloud

Clinical Data

Downloaded from TCGA and stored in a database at Emory

Pre-clinical Data

In a database at Emory

Radiology Images

Given the technical challenges inherent in such a system, technical solutions are being developed. One of the most fundamental to the success of the Integrated Query System is an Application Program Interface (API) that provides a Representational State Transfer (REST) API to TCIA metadata and image collections. This API is built using a middleware platform called Bindaas that also forms the backend infrastructure of caMicroscope. Bindaas is open source and extensible, so can be expanded to include more data types and additional integration. This API is being designed to support federation of multiple information repositories using the concept of data mashups. A data mashup in this case is a software interface, much like a dashboard, that allows a person to visualize and analyze data from different sources. The Integrated Query System, with its support for whole slides and data mashups, will act as a foundation for a broader set of novel community research projects.

Annotation and Markup for Radiology Images

Come out of the AIM Data Service

Pathology Data

Are in caMicroscope

Annotation and Markup for Pathology Images

Currently being developed but will be in the microAIM data service.

Small Animal/Co-clinical Improved DICOM Compliance and Data Integration

...