README.md

Perfusion Imaging via Advection-Diffusion

This is the official repository for our work on modeling perfusion imaging via advection-diffusion. This repository contains codes for simulating synthetic normal/abnormal brain advection-diffusion dataset, and modeling perfusion imaging from both optimization-based (PIANO) and deep-learning-based (YETI, SONATA) perspectives, as well as all the experiments in our papers:

Deep Decomposition for Stochastic Normal-Abnormal Transport - CVPR 2022 (Oral Presentation)

Discovering Hidden Physics Behind Transport Dynamics - CVPR 2021 (Oral Presentation)

Perfusion Imaging: An Advection Diffusion Approach - IEEE TMI

PIANO: Perfusion Imaging via Advection-Diffusion - MICCAI 2020 (Early Accept)

Cite our work

@InProceedings{Liu_2022_CVPR,
    author    = {Liu, Peirong and Lee, Yueh and Aylward, Stephen and Niethammer, Marc},
    title     = {Deep Decomposition for Stochastic Normal-Abnormal Transport},
    booktitle = {Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (CVPR)},
    month     = {June},
    year      = {2022},
    pages     = {18791-18801}
}

@InProceedings{Liu_2021_CVPR,
    author    = {Liu, Peirong and Tian, Lin and Zhang, Yubo and Aylward, Stephen and Lee, Yueh and Niethammer, Marc},
    title     = {Discovering Hidden Physics Behind Transport Dynamics},
    booktitle = {Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (CVPR)},
    month     = {June},
    year      = {2021},
    pages     = {10082-10092}
}

@article{Liu_2021_TMI,
  author={Liu, Peirong and Lee, Yueh Z. and Aylward, Stephen R. and Niethammer, Marc},
  journal={IEEE Transactions on Medical Imaging}, 
  title={Perfusion Imaging: An Advection Diffusion Approach}, 
  year={2021},
  volume={40},
  number={12},
  pages={3424-3435},
  doi={10.1109/TMI.2021.3085828}
}

@inproceedings{Liu_2020_MICCAI,
  author = {Liu, Peirong and Lee, Yueh Z. and Aylward, Stephen R. and Niethammer, Marc},
  title = {PIANO: Perfusion Imaging via Advection-Diffusion},
  year = {2020},
  isbn = {978-3-030-59727-6},
  pages = {688–698},
  doi = {10.1007/978-3-030-59728-3_67},
}

Installation and Uses

Access Our Simulated 3D Brain Advection-Diffusion Dataset

Download the dataset from this link.
This dataset is simulated based on original brain data from the IXI brain dataset.