Training and Comparison of nnU-Net and DeepMedic Methods for Autosegmentation of Pediatric Brain Tumors

1 code implementation • 16 Jan 2024 • Arastoo Vossough, Nastaran Khalili, Ariana M. Familiar, Deep Gandhi, Karthik Viswanathan, Wenxin Tu, Debanjan Haldar, Sina Bagheri, Hannah Anderson, Shuvanjan Haldar, Phillip B. Storm, Adam Resnick, Jeffrey B. Ware, Ali Nabavizadeh, Anahita Fathi Kazerooni

External validation of the trained nnU-Net model on the multi-institutional BraTS-PEDs 2023 dataset revealed high generalization capability in segmentation of whole tumor and tumor core with Dice scores of 0. 87+/-0. 13 (0. 91) and 0. 83+/-0. 18 (0. 89), respectively.

Segmentation Tumor Segmentation

A multi-institutional pediatric dataset of clinical radiology MRIs by the Children's Brain Tumor Network

no code implementations • 2 Oct 2023 • Ariana M. Familiar, Anahita Fathi Kazerooni, Hannah Anderson, Aliaksandr Lubneuski, Karthik Viswanathan, Rocky Breslow, Nastaran Khalili, Sina Bagheri, Debanjan Haldar, Meen Chul Kim, Sherjeel Arif, Rachel Madhogarhia, Thinh Q. Nguyen, Elizabeth A. Frenkel, Zeinab Helili, Jessica Harrison, Keyvan Farahani, Marius George Linguraru, Ulas Bagci, Yury Velichko, Jeffrey Stevens, Sarah Leary, Robert M. Lober, Stephani Campion, Amy A. Smith, Denise Morinigo, Brian Rood, Kimberly Diamond, Ian F. Pollack, Melissa Williams, Arastoo Vossough, Jeffrey B. Ware, Sabine Mueller, Phillip B. Storm, Allison P. Heath, Angela J. Waanders, Jena V. Lilly, Jennifer L. Mason, Adam C. Resnick, Ali Nabavizadeh

Pediatric brain and spinal cancers remain the leading cause of cancer-related death in children.

Deep Learning Based Detection of Enlarged Perivascular Spaces on Brain MRI

no code implementations • 27 Sep 2022 • Tanweer Rashid, Hangfan Liu, Jeffrey B. Ware, Karl Li, Jose Rafael Romero, Elyas Fadaee, Ilya M. Nasrallah, Saima Hilal, R. Nick Bryan, Timothy M. Hughes, Christos Davatzikos, Lenore Launer, Sudha Seshadri, Susan R. Heckbert, Mohamad Habes

BACKGROUND AND PURPOSE: Deep learning has been demonstrated effective in many neuroimaging applications.

Lesion Detection

DEEPMIR: A DEEP neural network for differential detection of cerebral Microbleeds and IRon deposits in MRI

no code implementations • 30 Sep 2020 • Tanweer Rashid, Ahmed Abdulkadir, Ilya M. Nasrallah, Jeffrey B. Ware, Hangfan Liu, Pascal Spincemaille, J. Rafael Romero, R. Nick Bryan, Susan R. Heckbert, Mohamad Habes

We developed a protocol for simultaneous manual annotation of CMBs and non-hemorrhage iron deposits in the basal ganglia.