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4D MRI via retrospectiv stacking of 2D Slices

Key Investigators

Remote Investigators

Project Description

Creating a program to generate 4D MRI sequences applying the retrospectiv stacking method on 2D MR slices. The available data is comprised of an time resolved alternating sequence of navigator and data slices and a pure sequence of time resolved navigator slices. All navigator slices were acquired at the exact same location and the data slices were “scanning” the complete liver in a cyclic manner. To generate a 4D MR sequence from that the program has to collect all data frames that were acquired during the same breating phase, i.e. not at the same time but at different times during the same breathing phase. To find these, the navigator slices are utilized. Finding correspondences between the navigator slices of the pure navigator sequence and the once of the alternating sequence means to find similar or same breathing phases. Thus we find all corresponding data slices giving the 3D liver at the specific breathing phase.


  1. Creating a program to generat sequences of 3D MR images from described 2D Slices.

Approach and Plan

  1. Using python
  2. Handling the Slice Data as one big 3D Data Array

Progress and Next Steps

previous steps

progress during project week

next steps


Data Acquisition Data acquisition

Data Sorting scheme Data Sorting

vessle tracking vessle tracking

Similarity measure similarity

Background and References

[VON SIEBENTHAL, Martin, et al. 4D MR imaging of respiratory organ motion and its variability. Physics in Medicine & Biology, 2007, 52. Jg., Nr. 6, S. 1547.⟧(http://iopscience.iop.org/article/10.1088/0031-9155/52/6/001/meta)