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Paul A. Yushkevich, Ph.D.

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.
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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

Laura Wisse, Daniel H Adler, Ranjit Ittyerah, John B Pluta, John L Robinson, Theresa Schuck, John Q Trojanowski, Murray Grossman, Sandy R Das, David A Wolk, Paul A Yushkevich: In vivo and Ex vivo imaging in the same subjects of the human hippocampal formation. Society for Neuroscience Annual Meeting October 2015 Notes: Accepted for oral presentation.

Sandhitsu Das, Jeffrey Duda, Jue Wu, Molly Daffner, Mark Elliott, Lauren Mancuso, Laura Wisse, Paul Yushkevich, David Wolk: Dissociable functional activation within MTL during pattern separation measured using high-resolution BOLD fMRI at 7 Tesla. Society for Neuroscience Annual Meeting October 2015.

Wisse Laura E M, Butala Nirali, Das Sandhitsu R, Davatzikos Christos, Dickerson Bradford C, Vaishnavi Sanjeev N, Yushkevich Paul A, Wolk David A: Suspected non-AD pathology in mild cognitive impairment. Neurobiology of aging Sep 2015.

Cash David M, Frost Chris, Iheme Leonardo O, Ünay Devrim, Kandemir Melek, Fripp Jurgen, Salvado Olivier, Bourgeat Pierrick, Reuter Martin, Fischl Bruce, Lorenzi Marco, Frisoni Giovanni B, Pennec Xavier, Pierson Ronald K, Gunter Jeffrey L, Senjem Matthew L, Jack Clifford R, Guizard Nicolas, Fonov Vladimir S, Collins D Louis, Modat Marc, Cardoso M Jorge, Leung Kelvin K, Wang Hongzhi, Das Sandhitsu R, Yushkevich Paul A, Malone Ian B, Fox Nick C, Schott Jonathan M, Ourselin Sebastien: Assessing atrophy measurement techniques in dementia: Results from the MIRIAD atrophy challenge. NeuroImage 123: 149-164, Aug 2015.

Laura Wisse, Nirali Butala, Sandy Das, Paul Yushkevich, and David Wolk: Mild Cognitive Impairment Patients with Suspected Non-Alzheimer's Disease Pathology. Alzheimer's Association International Conference July 2015 Notes: Oral presentation.

Yushkevich Paul A, Amaral Robert S C, Augustinack Jean C, Bender Andrew R, Bernstein Jeffrey D, Boccardi Marina, Bocchetta Martina, Burggren Alison C, Carr Valerie A, Chakravarty M Mallar, Chételat Gaël, Daugherty Ana M, Davachi Lila, Ding Song-Lin, Ekstrom Arne, Geerlings Mirjam I, Hassan Abdul, Huang Yushan, Iglesias J Eugenio, La Joie Renaud, Kerchner Geoffrey A, LaRocque Karen F, Libby Laura A, Malykhin Nikolai, Mueller Susanne G, Olsen Rosanna K, Palombo Daniela J, Parekh Mansi B, Pluta John B, Preston Alison R, Pruessner Jens C, Ranganath Charan, Raz Naftali, Schlichting Margaret L, Schoemaker Dorothee, Singh Sachi, Stark Craig E L, Suthana Nanthia, Tompary Alexa, Turowski Marta M, Van Leemput Koen, Wagner Anthony D, Wang Lei, Winterburn Julie L, Wisse Laura E M, Yassa Michael A, Zeineh Michael M: Quantitative comparison of 21 protocols for labeling hippocampal subfields and parahippocampal subregions in in vivo MRI: towards a harmonized segmentation protocol. NeuroImage 111: 526-41, May 2015.

Negash Selam, Kliot Daria, Howard Darlene V, Howard James H, Das Sandhistu R, Yushkevich Paul A, Pluta John B, Arnold Steven E, Wolk David A: Relationship of contextual cueing and hippocampal volume in amnestic mild cognitive impairment patients and cognitively normal older adults. Journal of the International Neuropsychological Society : JINS 21(4): 285-96, Apr 2015.

Pouch Alison M, Tian Sijie, Takabe Manabu, Wang Hongzhi, Yuan Jiefu, Cheung Albert T, Jackson Benjamin M, Gorman Joseph H, Gorman Robert C, Yushkevich Paul A: Segmentation of the Aortic Valve Apparatus in 3D Echocardiographic Images: Deformable Modeling of a Branching Medial Structure. Proc. Statistical atlases and computational models of the heart : Imaging and modelling challenges : 5th International Workshop, STACOM 2014, held in conjunction with MICCAI 2014 8896: 196-203, Jan 2015.

Contijoch Francisco, Witschey Walter R T, Rogers Kelly, Rears Hannah, Hansen Michael, Yushkevich Paul, Gorman Joseph, Gorman Robert C, Han Yuchi: User-initialized active contour segmentation and golden-angle real-time cardiovascular magnetic resonance enable accurate assessment of LV function in patients with sinus rhythm and arrhythmias. Journal of cardiovascular magnetic resonance : official journal of the Society for Cardiovascular Magnetic Resonance 17: 37, 2015.

Alison M Pouch, Sijie Tian, Manabu Takebe, Jiefu Yuan, Robert Gorman, Albert T Cheung, Hongzhi Wang, Benjamin Jackson, Joseph H Gorman, Robert C Gorman, Paul A Yushkevich: Medially constrained deformable modeling for segmentation of branching medial structures: Application to aortic valve segmentation and morphometry. Medical Image Analysis 2015 Notes: In Press.

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Last updated: 10/06/2015
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