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The purpose of the digital pathology component of CTIIP is to support data mashups between image-derived information from TCIA and clinical and molecular metadata from TCGA. The team is using OpenSlide, a vendor-neutral C library, to extend the software of caMicroscope, a digital pathology server, to provide the infrastructure for these data mashups. The extended software will support some of the common formats adopted by whole slide vendors as well as basic image analysis algorithms. With the incorporation of common whole slide formats, caMicroscope will be able to read whole slides without recoding, which often introduces additional compression artifacts. With the addition of support for basic image analysis algorithms, (CKK: the following things can happen...). These additional features of caMicroscope will make it possible to conceptually integrate digital pathology images within TCIA and NBIA and provide a logical bridge from proprietary pathology formats to DICOM standards.

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This infrastructure can be expanded to include more data types and additional integration, which will provide analytic and decision support to researchers, who can then pursue a broader set of novel community research projects.

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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 that were used to validate TCGA clinical data. Second, data comparisons require common data standards.

We are exploring the standardization of informatics. Use all the tools we have to create standard informatics to compare patient to animal data. We are using the available standards: DICOM, AIM, micro AIM. Fundamental to integrative queries.

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