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Paul A. Yushkevich, Ph.D.

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Associate Professor of Radiology
Department: Radiology

Contact information
Penn Image Computing and Science Laboratory
Richards Building, 6th Floor, D605
3700 Hamilton Walk
Philadelphia, PA 19104
Office: 215-746-6924
B.S. (Computer Science and Mathematics)
University of North Carolina at Charlotte, 1996.
M.S. (Computer Science)
University of North Carolina Chapel Hill, 2000.
Ph.D. (Computer Science)
University of North Carolina Chapel Hill, 2003.
Post-Graduate Training
Research Fellow, Radiology, University of Pennsylvania, 2003-2006.
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Description of Research Expertise

My research portfolio combines theoretical work on statistical shape characterization using a symmetry-based representation of shape with applied and translational research in multiple areas of biomedical image analysis. I am particularly interested in analysis techniques that are tailored to specific anatomical structures. My key work in this area involves automatic segmentation and morphometry of the hippocampal formation (HF) in magnetic resonance imaging (MRI). The HF plays a central role in memory function and is a site of early neurodegeneration in Alzheimer’s disease. In a broad effort to develop more detailed imaging-based biomarkers for Alzheimer’s disease, my team has developed a first of its kind detailed computational atlas of the HF from postmortem MRI microscopy. With NIH R01 funding, we are now integrating this atlas with histology, leveraging it for the analysis of the HF and its subfields in in vivo MRI, and evaluating MRI-derived subfield-specific as alternative imaging biomarkers in dementia. We recently published a pioneering technique for automatic segmentation of HF subfields in high-resolution, HF-focused T2-weighted in vivo MRI, showing excellent agreement with manual segmentation. Concurrently, we developed and evaluated a strategy for improving the accuracy of general-purpose segmentation techniques using machine learning as a corrective wrapper method. Other recent publications include a surface-based tract-specific strategy for diffusion MRI analysis, for which open-source software is currently being developed, and an automatic cardiac MRI segmentation method with an explicit prior on heart wall thickness.

Selected Publications

Mueller Susanne G, Yushkevich Paul A, Das Sandhitsu, Wang Lei, Van Leemput Koen, Iglesias Juan Eugenio, Alpert Kate, Mezher Adam, Ng Peter, Paz Katrina, Weiner Michael W: Systematic comparison of different techniques to measure hippocampal subfield volumes in ADNI2. NeuroImage. Clinical 17(27): 1006-1018, Dec 2018.

Xie L., Das S.,Pilania A.,Daffner M., Stockbower G.E., Dolui S,Yushkevich PA, Detre J.A., Wolk D.A.: Task-Enhanced Arterial Spin Labeled Perfusion MRI Predicts Longitudinal Neurodegeneration in Mild Cognitive Impairment. Hippocampus Sept 2018 Notes: (Epub ahead of pring).

Oguz, B.U., Wang, J., Yushkevich, N., Pouch, A., Gee, J.C., Yushkevich, P.A., Schwartz, N., Oguz, I.: Combining Deep Learning and Multi-atlas Label Fusion for Automated Placenta Segmentation from 3DUS. Springer, Cham 11076: 138-148, Sept 2018.

Niazi M, Karaman M, Das S, Zhou X J, Yushkevich P, Cai K: Quantitative MRI of Perivascular Spaces at 3T for Early Diagnosis of Mild Cognitive Impairment. AJNR. American journal of neuroradiology Aug 2018.

Das Sandhitsu R, Xie Long, Wisse Laura E M, Ittyerah Ranjit, Tustison Nicholas J, Dickerson Bradford C, Yushkevich Paul A, Wolk David A: Longitudinal and cross-sectional structural magnetic resonance imaging correlates of AV-1451 uptake. Neurobiology of aging 66: 49-58, Jun 2018.

Yushkevich Paul A, Pashchinskiy Artem, Oguz Ipek, Mohan Suyash, Schmitt J Eric, Stein Joel M, Zukić Dženan, Vicory Jared, McCormick Matthew, Yushkevich Natalie, Schwartz Nadav, Gao Yang, Gerig Guido: User-Guided Segmentation of Multi-modality Medical Imaging Datasets with ITK-SNAP. Neuroinformatics Jun 2018 Notes: [Epub ahead of print]

Adler Daniel H, Wisse Laura E M, Ittyerah Ranjit, Pluta John B, Ding Song-Lin, Xie Long, Wang Jiancong, Kadivar Salmon, Robinson John L, Schuck Theresa, Trojanowski John Q, Grossman Murray, Detre John A, Elliott Mark A, Toledo Jon B, Liu Weixia, Pickup Stephen, Miller Michael I, Das Sandhitsu R, Wolk David A, Yushkevich Paul A: Characterizing the human hippocampus in aging and Alzheimer's disease using a computational atlas derived from ex vivo MRI and histology. Proceedings of the National Academy of Sciences of the United States of America 115(16): 4252-4257, Apr 2018.

Shah Preya, Bassett Danielle S, Wisse Laura E M, Detre John A, Stein Joel M, Yushkevich Paul A, Shinohara Russell T, Pluta John B, Valenciano Elijah, Daffner Molly, Wolk David A, Elliott Mark A, Litt Brian, Davis Kathryn A, Das Sandhitsu R: Mapping the structural and functional network architecture of the medial temporal lobe using 7T MRI. Human brain mapping 39(2): 851-865, Feb 2018.

Wisse L E M, Das S R, Davatzikos C, Dickerson B C, Xie S X, Yushkevich P A, Wolk D A: Defining SNAP by cross-sectional and longitudinal definitions of neurodegeneration. NeuroImage. Clinical 18(8): 407-412, Feb 2018.

Oguz, I., Carass, A., Pham, D.L., Roy, S., Subbana, N., Calabresi, P.A., Yushkevich, P.A. Shinohara, R.T., Prince, J.: Novel Techniques for MS Lesion Segmentation Algorithm Evaluation. Sage Publications Ltd Page: 72-73, Feb 2018.

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Last updated: 10/08/2018
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