Surface-based parcellation and vertex-wise analysis of ultra high-resolution ex vivo 7 tesla MRI in neurodegenerative diseases

no code implementations • 28 Mar 2024 • Pulkit Khandelwal, Michael Tran Duong, Constanza Fuentes, Amanda Denning, Winifred Trotman, Ranjit Ittyerah, Alejandra Bahena, Theresa Schuck, Marianna Gabrielyan, Karthik Prabhakaran, Daniel Ohm, Gabor Mizsei, John Robinson, Monica Munoz, John Detre, Edward Lee, David Irwin, Corey McMillan, M. Dylan Tisdall, Sandhitsu Das, David Wolk, Paul A. Yushkevich

Magnetic resonance imaging (MRI) is the standard modality to understand human brain structure and function in vivo (antemortem).

Automated deep learning segmentation of high-resolution 7 T postmortem MRI for quantitative analysis of structure-pathology correlations in neurodegenerative diseases

2 code implementations • 21 Mar 2023 • Pulkit Khandelwal, Michael Tran Duong, Shokufeh Sadaghiani, Sydney Lim, Amanda Denning, Eunice Chung, Sadhana Ravikumar, Sanaz Arezoumandan, Claire Peterson, Madigan Bedard, Noah Capp, Ranjit Ittyerah, Elyse Migdal, Grace Choi, Emily Kopp, Bridget Loja, Eusha Hasan, Jiacheng Li, Alejandra Bahena, Karthik Prabhakaran, Gabor Mizsei, Marianna Gabrielyan, Theresa Schuck, Winifred Trotman, John Robinson, Daniel Ohm, Edward B. Lee, John Q. Trojanowski, Corey McMillan, Murray Grossman, David J. Irwin, John Detre, M. Dylan Tisdall, Sandhitsu R. Das, Laura E. M. Wisse, David A. Wolk, Paul A. Yushkevich

Postmortem MRI allows brain anatomy to be examined at high resolution and to link pathology measures with morphometric measurements.

Anatomy Benchmarking

Improved Segmentation of Deep Sulci in Cortical Gray Matter Using a Deep Learning Framework Incorporating Laplace's Equation

no code implementations • 1 Mar 2023 • Sadhana Ravikumar, Ranjit Ittyerah, Sydney Lim, Long Xie, Sandhitsu Das, Pulkit Khandelwal, Laura E. M. Wisse, Madigan L. Bedard, John L. Robinson, Terry Schuck, Murray Grossman, John Q. Trojanowski, Edward B. Lee, M. Dylan Tisdall, Karthik Prabhakaran, John A. Detre, David J. Irwin, Winifred Trotman, Gabor Mizsei, Emilio Artacho-Pérula, Maria Mercedes Iñiguez de Onzono Martin, Maria del Mar Arroyo Jiménez, Monica Muñoz, Francisco Javier Molina Romero, Maria del Pilar Marcos Rabal, Sandra Cebada-Sánchez, José Carlos Delgado González, Carlos de la Rosa-Prieto, Marta Córcoles Parada, David A. Wolk, Ricardo Insausti, Paul A. Yushkevich

When developing tools for automated cortical segmentation, the ability to produce topologically correct segmentations is important in order to compute geometrically valid morphometry measures.

Anatomy Segmentation +1

Gray Matter Segmentation in Ultra High Resolution 7 Tesla ex vivo T2w MRI of Human Brain Hemispheres

2 code implementations • 14 Oct 2021 • Pulkit Khandelwal, Shokufeh Sadaghiani, Michael Tran Duong, Sadhana Ravikumar, Sydney Lim, Sanaz Arezoumandan, Claire Peterson, Eunice Chung, Madigan Bedard, Noah Capp, Ranjit Ittyerah, Elyse Migdal, Grace Choi, Emily Kopp, Bridget Loja, Eusha Hasan, Jiacheng Li, Karthik Prabhakaran, Gabor Mizsei, Marianna Gabrielyan, Theresa Schuck, John Robinson, Daniel Ohm, Edward Lee, John Q. Trojanowski, Corey McMillan, Murray Grossman, David Irwin, M. Dylan Tisdall, Sandhitsu R. Das, Laura E. M. Wisse, David A. Wolk, Paul A. Yushkevich

Ex vivo MRI of the brain provides remarkable advantages over in vivo MRI for visualizing and characterizing detailed neuroanatomy.

Segmentation

Rapid head-pose detection for automated slice prescription of fetal-brain MRI

no code implementations • 8 Oct 2021 • Malte Hoffmann, Esra Abaci Turk, Borjan Gagoski, Leah Morgan, Paul Wighton, M. Dylan Tisdall, Martin Reuter, Elfar Adalsteinsson, P. Ellen Grant, Lawrence L. Wald, André J. W. van der Kouwe

In fetal-brain MRI, head-pose changes between prescription and acquisition present a challenge to obtaining the standard sagittal, coronal and axial views essential to clinical assessment.