Paul A. Yushkevich, Ph.D.

faculty photo
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
Education:
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.
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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

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.

Long Xie, Laura Wisse, Ranjit Ittyerah, Nicholas Tustison, Bradford Dickerson, Paul Yushkevich, David Wolk: Longitudinal and cross-sectional structural MRI correlates of AV-1451 uptake. Neurobiology of Aging 2018 Notes: accepted.

Mueller, S.G., Yushkevich, P.A., Das, S., Wang, L., Van Leemput, K., Iglesias, J.E., Alpert, K., Mezher, A., Ng, P., Paz, K. and Weiner, M.W.: Systematic comparison of different techniques to measure hippocampal subfield volumes in ADNI2. NeuroImage: Clinical 2018 Notes: in press.

L. Xie, R.T. Shinohara, R Ittyerah, H.J. Kuijf, J.B. Pluta, K. Blom, M. Kooistra, Y.D. Reijmer, H. L. Koek, J.J.M. Zwanenburg, H. Wang, P.R. Luijten, M.I. Geerlings, S.R. Das G.J. Biessels, D.A. Wolk, P.A. Yushkevich, L.E.M. Wisse: Automated multi-atlas segmentation of hippocampal and extrahippocampal subregions in Alzheimer's disease at 3T and 7T: what atlas composition works best? Journal of Alzheimer's Disease 2018 Notes: accepted.

Davatzikos, C., Rathore, S., Bakas, S., Pati, S., Bergman, M., Kalarot, R., Sridharan, P., Gastounioti, A., Jahani, N., Cohen, E. and Akbari, H.: Cancer imaging phenomics toolkit: quantitative imaging analytics for precision diagnostics and predictive modeling of clinical outcome. Journal of Medical Imaging 5(1), 2018.

Pouch Alison M, Aly Ahmed H, Lai Eric K, Yushkevich Natalie, Stoffers Rutger H, Gorman Joseph H, Cheung Albert T, Gorman Joseph H, Gorman Robert C, Yushkevich Paul A: Spatiotemporal Segmentation and Modeling of the Mitral Valve in Real-Time 3D Echocardiographic Images. Medical image computing and computer-assisted intervention : MICCAI ... International Conference on Medical Image Computing and Computer-Assisted Intervention 10433: 746-754, Sep 2017.

Pecheva Diliana, Yushkevich Paul, Batalle Dafnis, Hughes Emer, Aljabar Paul, Wurie Julia, Hajnal Joseph V, Edwards A David, Alexander Daniel C, Counsell Serena J, Zhang Hui: A tract-specific approach to assessing white matter in preterm infants. NeuroImage 157: 675-694, Apr 2017.

Wisse Laura E M, Daugherty Ana M, Olsen Rosanna K, Berron David, Carr Valerie A, Stark Craig E L, Amaral Robert S C, Amunts Katrin, Augustinack Jean C, Bender Andrew R, Bernstein Jeffrey D, Boccardi Marina, Bocchetta Martina, Burggren Alison, Chakravarty M Mallar, Chupin Marie, Ekstrom Arne, de Flores Robin, Insausti Ricardo, Kanel Prabesh, Kedo Olga, Kennedy Kristen M, Kerchner Geoffrey A, LaRocque Karen F, Liu Xiuwen, Maass Anne, Malykhin Nicolai, Mueller Susanne G, Ofen Noa, Palombo Daniela J, Parekh Mansi B, Pluta John B, Pruessner Jens C, Raz Naftali, Rodrigue Karen M, Schoemaker Dorothee, Shafer Andrea T, Steve Trevor A, Suthana Nanthia, Wang Lei, Winterburn Julie L, Yassa Michael A, Yushkevich Paul A, la Joie Renaud: A harmonized segmentation protocol for hippocampal and parahippocampal subregions: Why do we need one and what are the key goals? Hippocampus 27(1): 3-11, Jan 2017.

Xie Long, Pluta John B, Das Sandhitsu R, Wisse Laura E M, Wang Hongzhi, Mancuso Lauren, Kliot Dasha, Avants Brian B, Ding Song-Lin, Manjón José V, Wolk David A, Yushkevich Paul A: Multi-template analysis of human perirhinal cortex in brain MRI: Explicitly accounting for anatomical variability. NeuroImage 144(Pt A): 183-202, Jan 2017.

Wolk David A, Das Sandhitsu R, Mueller Susanne G, Weiner Michael W, Yushkevich Paul A: Medial temporal lobe subregional morphometry using high resolution MRI in Alzheimer's disease. Neurobiology of aging 49: 204-213, Jan 2017.

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Last updated: 01/31/2018
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