1 / 10

DICOM-3 as a standard for virtual slides

DICOM-3 as a standard for virtual slides. Marcial Gª Rojo, Carlos Peces, Javier García marcial@cim.es General Hospital of Ciudad Real Center of Research in Information Technologies of the Castilla-La Mancha Health Service (SESCAM) Spanish Society of Health Informatics Spain.

mariov
Download Presentation

DICOM-3 as a standard for virtual slides

An Image/Link below is provided (as is) to download presentation Download Policy: Content on the Website is provided to you AS IS for your information and personal use and may not be sold / licensed / shared on other websites without getting consent from its author. Content is provided to you AS IS for your information and personal use only. Download presentation by click this link. While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server. During download, if you can't get a presentation, the file might be deleted by the publisher.

E N D

Presentation Transcript

  1. DICOM-3 as a standard for virtual slides Marcial Gª Rojo, Carlos Peces, Javier García marcial@cim.es General Hospital of Ciudad RealCenter of Research in Information Technologies of the Castilla-La Mancha Health Service (SESCAM) Spanish Society of Health Informatics Spain

  2. DICOM and Pathology • DICOM WG-13 (Visible Light) • Very large microscope scans of slides problem is assessed in 2003 (Bruce Beckwith, CAP) • DICOM WG-8 (Structured Reporting) • DICOM WG-04 (Compression) • JPEG2000 in DICOM files

  3. Virtual slides project • Background: IHE Pathology Technical Framework in Development • Aim: Integration of pathology images using DICOM • Evaluated systems: • Nikon Coolscope with EclipseNet VSL • Aperio ScanScope T2 • LifeSpan BioSciences Alias II • Olympus/Soft Imaging System .slide • Bacus BLISS (CNIO, Spain) • Zeiss Mirax Scan (Demo presentation)

  4. File size and different formats • PACS systems manage images which are DICOM-compliant. • DICOM files are limited in size to 2GB. • Most DICOM systems cannot manage TIFF files with a tiled organization, and/or TIFF files with JPEG or JPEG2000 compression. • For these reasons it is generally not possible to import proprietary files (Aperio .SVS, Olympus-SIS .VSI,…) directly into PACS.

  5. …Image transmission • PACS systems use a store-and-forward idiom. All image data are stored on a central server. • The entire image is transmitted from the server to the client, and loaded into the client’s memory. • Large images are slow to load, slow to view, and slow to process. • Images larger than about 500MB are impossible to process.

  6. Solution: single JPEG2000 as DICOM object • JPEG2000 gives excellent compression ratios • Proprietary files (SVS) are used for initial pathology diagnosis. • When cases are signed, they are converted into JPEG2000. • PACS system is able to manage JPEG2000 files (<2GB) • JPEG2000 large single file is embedded as DICOM object (PixelMed DICOM toolkit, modified)  PACS • When requested from PACS, JPEG2000 files are fragmented into small chunks (Kakadu-based algorithm, high computing resources)  Common image viewer • If proprietary (SVS, VSI,..) files are needed later on (by Pathology Dept.) , an algorithm is used to reconstruct those proprietary files.

  7. Schema Pathology Dept Image processing intermediary server Other medical departments (web viewer)

  8. Solutions for web viewer • Cutting large images into small tiles: • Small JPEG pieces. Java application. A similar method is used by ZoomifyER • JPEG2000 viewer. Java application based in Kakadu library

  9. Our Proposal for DICOM • SESCAM CITI DICOM Conformance Statement available on request: cpeces@sescam.jccm.es • Field Value • Transfer syntax JPEG2000 lossless • SOP Class VL Microscopic Image Storage • Modality GM (General Microscopic) • Photometric interpretation  YBR_RCT (instead of RGB, to use JPEG2000 reversible color transform)

  10. Transmission between PACS and web viewer • DICOM transference (C-MOVE o C-GET/C-STORE) • Standard protocols (JPEG/HTTP, J2K/JPIP) • Proprietary protocol • DICOM Persistent Object transference (WADO/HTTP). Our next step

More Related