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Enhancing Imaging Platforms for Clinical and Research Applications in Slicer3

Clinicians and researchers rely on imaging platforms for essential functions such as window/level adjustments, pan/zoom, and volume rendering. To adapt these features for an optimal Slicer experience, we address the need for oblique reformats and advanced lightbox functionalities. This includes tools for overlays, annotations, and fiducial placement, which help in longitudinal and cross-sectional analysis. Moreover, our approach facilitates atlas construction, manual delineation, and precise dimensional measurements, ultimately advancing 3D imaging capabilities in clinical diagnostics and research.

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Enhancing Imaging Platforms for Clinical and Research Applications in Slicer3

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  1. Viewing essentials James Miller, Ph.D.‡. James Ross, M.Sc.‡, Xi Wang, Ph.D.‡, Steve Pieper, Ph.D.§, Wendy Plesniak, Ph.D.¥ ‡GE Research §Isomics ¥Surgical Planning Laboratory, Brigham and Women’s Hospital

  2. Requisites, expectations and adaptations • Clinicians and researchers need and expect imaging platforms to provide stock capabilities • Window/level • Pan/zoom • Annotation • Probe • Measurement • Oblique reformat • Volume rendering • Lightbox • How do we adapt these concepts to a Slicer experience?

  3. Lightbox http://www.brighamandwomens.org/excellence/neuroscience.aspx ?

  4. Standard lightbox viewing http://www.brighamandwomens.org/excellence/neuroscience.aspx

  5. … with overlays

  6. … with annotations

  7. … with fiducials

  8. … with multiple reformations

  9. … with an editor X

  10. Oblique reformat • Anatomy is rarely predominantly aligned axially, sagitally, or coronally • Oblique reformation allows image display planes to be aligned to an anatomy’s principal axes Axial Oblique

  11. Standard oblique reformat CTRL-Right Button to manipulate reformation

  12. … with lightbox

  13. Comparing series and studies • Longitudinal analysis • Cross-sectional analysis

  14. Standard comparison of studies

  15. … with overlays

  16. … with annotations

  17. … with fiducials

  18. … after registration

  19. … with lightbox

  20. … with oblique reformation

  21. Applications • Atlas construction • Manual delineation • Quality control • Cross-sectional comparison of atlas subjects before and after aligning to common coordinate frame • Cross-sectional comparison of atlas subjects to constructed atlas • Atlas application • Comparison of atlas to new subject • Cross-sectional comparison of new subjects aligned with atlas • Longitudinal analysis • Response to therapy

  22. Image viewing is still predominantly 2D • Native format of acquisition • Precision dimensional measurements • Multiplanar reformat (axial, sagittal, coronal) provides a natural (perhaps comfortable) navigation paradigm • Lightbox provides a mechanism to display 3D relationships • Oblique reformats provide a mechanism to mitigate 3D effects (improve accuracy of dimensional measurements) • Longitudinal and cross-sectional comparisons build on the same framework of linked controls and coordinate frames • Slicer3 allows all these capabilities to be layered due incorporation of coordinate frames at a fundamental level of the viewing pipeline

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