Loading and segmentation of histopathology imaging for radiological-pathological correlation

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Home < Loading and segmentation of histopathology imaging for radiological-pathological correlation

Instructions for Use of this Template

Key Investigators

  • SPL: Andrey Fedorov, Tobias Penzkofer

Objective

To enable Slicer 4 to load, view and process histopathology data.

Approach, Plan

Find, analyze and adapt the routines responsible for 3 channel image handling to enable processing of scanned histology slides with possible extensions towards registration of histo/path, digital pathology imaging and -analysis.

Progress

Possible solutions have been identified (Downsampling, NRRD file format save) and applied. Loose ends have been identified.

Delivery Mechanism

This work will be delivered to the NA-MIC Kit as a (please select the appropriate options by noting YES against them below)

  1. Slicer Module
    1. Built-in YES
    2. Extension -- commandline NO
    3. Extension -- loadable PROBABLY
  2. Other (Please specify)

References

  • Trivedi, H., B. Turkbey, et al. (2012). "Use of patient-­‐specific MRI-­‐based prostate mold for validation of multiparametric MRI in localization of prostate cancer." Urology 79(1): 233-­‐239.
  • "Elastic registration of multimodal prostate MRI and histology via multiattribute combined mutual information." Med Phys 38(4): 2005-­‐2018.
  • "Semi-­‐automatic deformable registration of prostate MR images to pathological slices." J Magn Reson Imaging 32(5): 1149-­‐1157.
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