Paul A Yushkevich

Summary

Affiliation: University of Pennsylvania
Country: USA

Publications

  1. ncbi request reprint User-guided 3D active contour segmentation of anatomical structures: significantly improved efficiency and reliability
    Paul A Yushkevich
    Penn Image Computing and Science Laboratory, Department of Radiology, University of Pennsylvania, PA 19104 6274, USA
    Neuroimage 31:1116-28. 2006
  2. ncbi request reprint Regional structural characterization of the brain of schizophrenia patients
    Paul Yushkevich
    Department of Radiology, 3600 Market Street, Suite 370, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA
    Acad Radiol 12:1250-61. 2005
  3. pmc Hippocampus-specific fMRI group activation analysis using the continuous medial representation
    Paul A Yushkevich
    Penn Image Computing and Science Laboratory PICSL, Department of Radiology, University of Pennsylvania, 3600 Market St, Ste 370, Philadelphia, PA 19104, USA
    Neuroimage 35:1516-30. 2007
  4. ncbi request reprint Continuous medial representation for anatomical structures
    Paul A Yushkevich
    Department of Radiology, University of Pennsylvania, Philadelphia, PA 19104, USA
    IEEE Trans Med Imaging 25:1547-64. 2006
  5. pmc Nearly automatic segmentation of hippocampal subfields in in vivo focal T2-weighted MRI
    Paul A Yushkevich
    Penn Image Computing and Science Laboratory, Department of Radiology, University of Pennsylvania, Philadelphia, PA, USA
    Neuroimage 53:1208-24. 2010
  6. ncbi request reprint Evaluation of shape-based normalization in the corpus callosum for white matter connectivity analysis
    Hui Sun
    Penn Image Computing and Science Laboratory, Department of Radiology, University of Pennsylvania, Philadelphia, USA
    Med Image Comput Comput Assist Interv 10:777-84. 2007
  7. ncbi request reprint Shape-based normalization of the corpus callosum for DTI connectivity analysis
    Hui Sun
    Penn Image Computing and Science Laboratory, Department of Radiology, University of Pennsylvania, Philadelphia, PA 19104, USA
    IEEE Trans Med Imaging 26:1166-78. 2007
  8. ncbi request reprint Hippocampus-specific fMRI group activation analysis with continuous M-Reps
    Paul A Yushkevich
    Penn Image Computing and Science Laboratory, University of Pennsylvania, USA
    Med Image Comput Comput Assist Interv 9:284-91. 2006
  9. pmc Shape-based alignment of hippocampal subfields: evaluation in postmortem MRI
    Paul A Yushkevich
    Department of Radiology, University of Pennsylvania, USA
    Med Image Comput Comput Assist Interv 11:510-7. 2008
  10. pmc A tract-specific framework for white matter morphometry combining macroscopic and microscopic tract features
    Hui Zhang
    Penn Image Computing and Science Laboratory PICSL, Department of Radiology, University of Pennsylvania, Philadelphia, PA 19104, USA
    Med Image Anal 14:666-73. 2010

Detail Information

Publications42

  1. ncbi request reprint User-guided 3D active contour segmentation of anatomical structures: significantly improved efficiency and reliability
    Paul A Yushkevich
    Penn Image Computing and Science Laboratory, Department of Radiology, University of Pennsylvania, PA 19104 6274, USA
    Neuroimage 31:1116-28. 2006
    ..Analogous results for lateral ventricle segmentation are provided...
  2. ncbi request reprint Regional structural characterization of the brain of schizophrenia patients
    Paul Yushkevich
    Department of Radiology, 3600 Market Street, Suite 370, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA
    Acad Radiol 12:1250-61. 2005
    ..We study morphologic characteristics and age-related changes in patients with schizophrenia to investigate whether abnormal neurodevelopment and brain structure have a role in the pathophysiological course of this disease...
  3. pmc Hippocampus-specific fMRI group activation analysis using the continuous medial representation
    Paul A Yushkevich
    Penn Image Computing and Science Laboratory PICSL, Department of Radiology, University of Pennsylvania, 3600 Market St, Ste 370, Philadelphia, PA 19104, USA
    Neuroimage 35:1516-30. 2007
    ..Human Brain Mapping, 2(4): 189-210) at low levels of smoothing, suggesting that greater specificity can be achieved by the new method without a severe tradeoff in sensitivity...
  4. ncbi request reprint Continuous medial representation for anatomical structures
    Paul A Yushkevich
    Department of Radiology, University of Pennsylvania, Philadelphia, PA 19104, USA
    IEEE Trans Med Imaging 25:1547-64. 2006
    ....
  5. pmc Nearly automatic segmentation of hippocampal subfields in in vivo focal T2-weighted MRI
    Paul A Yushkevich
    Penn Image Computing and Science Laboratory, Department of Radiology, University of Pennsylvania, Philadelphia, PA, USA
    Neuroimage 53:1208-24. 2010
    ..These results support the feasibility of subfield-specific hippocampal morphometry in clinical studies of memory and neurodegenerative disease...
  6. ncbi request reprint Evaluation of shape-based normalization in the corpus callosum for white matter connectivity analysis
    Hui Sun
    Penn Image Computing and Science Laboratory, Department of Radiology, University of Pennsylvania, Philadelphia, USA
    Med Image Comput Comput Assist Interv 10:777-84. 2007
    ..These results suggest that cm-rep is an appropriate tool for normalizing the MSCC in white matter studies...
  7. ncbi request reprint Shape-based normalization of the corpus callosum for DTI connectivity analysis
    Hui Sun
    Penn Image Computing and Science Laboratory, Department of Radiology, University of Pennsylvania, Philadelphia, PA 19104, USA
    IEEE Trans Med Imaging 26:1166-78. 2007
    ..These results suggest that cm-rep is an appropriate tool for normalizing the corpus callosum in white matter studies...
  8. ncbi request reprint Hippocampus-specific fMRI group activation analysis with continuous M-Reps
    Paul A Yushkevich
    Penn Image Computing and Science Laboratory, University of Pennsylvania, USA
    Med Image Comput Comput Assist Interv 9:284-91. 2006
    ..When applied to real fMRI data, the method detects more significant hippocampal activation than the established whole-brain method...
  9. pmc Shape-based alignment of hippocampal subfields: evaluation in postmortem MRI
    Paul A Yushkevich
    Department of Radiology, University of Pennsylvania, USA
    Med Image Comput Comput Assist Interv 11:510-7. 2008
    ....
  10. pmc A tract-specific framework for white matter morphometry combining macroscopic and microscopic tract features
    Hui Zhang
    Penn Image Computing and Science Laboratory PICSL, Department of Radiology, University of Pennsylvania, Philadelphia, PA 19104, USA
    Med Image Anal 14:666-73. 2010
    ..We show that, compared to using microscopic features alone, combining the macroscopic and microscopic features gives a more complete characterization of the disease...
  11. pmc A high-resolution computational atlas of the human hippocampus from postmortem magnetic resonance imaging at 9.4 T
    Paul A Yushkevich
    Penn Image Computing and Science Laboratory PICSL, Department of Radiology, University of Pennsylvania, Philadelphia, PA 19104, USA
    Neuroimage 44:385-98. 2009
    ..An example application examining subfield-level hippocampal atrophy in temporal lobe epilepsy demonstrates the application of the atlas to in vivo studies...
  12. ncbi request reprint Unbiased white matter atlas construction using diffusion tensor images
    Hui Zhang
    Penn Image Computing and Science Laboratory PICSL, Department of Radiology, University of Pennsylvania, Philadelphia, USA
    Med Image Comput Comput Assist Interv 10:211-8. 2007
    ..Our results suggest that using full tensor information can better align the orientations of WM fiber bundles...
  13. pmc A learning-based wrapper method to correct systematic errors in automatic image segmentation: consistently improved performance in hippocampus, cortex and brain segmentation
    Hongzhi Wang
    Penn Image Computing and Science Laboratory, Department of Radiology, University of Pennsylvania, Philadelphia, PA, USA
    Neuroimage 55:968-85. 2011
    ..908 for normal controls and 0.893 for patients with mild cognitive impairment. Average Dice overlaps of 0.964, 0.905 and 0.951 are obtained for brain extraction, white matter segmentation and gray matter segmentation, respectively...
  14. ncbi request reprint High-dimensional spatial normalization of diffusion tensor images improves the detection of white matter differences: an example study using amyotrophic lateral sclerosis
    Hui Zhang
    Penn Image Computing and Science Laboratory, University of Pennsylvania, Philadelphia, PA 19104, USA
    IEEE Trans Med Imaging 26:1585-97. 2007
    ..We also found that high-dimensional approaches, by leveraging full tensor features instead of tensor-derived indices, can further improve the alignment of WM tracts...
  15. ncbi request reprint Statistical modeling of shape and appearance using the continuous medial representation
    Paul A Yushkevich
    Department of Radiology, University of Pennsylvania, USA
    Med Image Comput Comput Assist Interv 8:725-32. 2005
    ..The approach is illustrated by the principal components analysis of the shape and appearance of the hippocampus in T1-weighted MRI from a schizophrenia study...
  16. ncbi request reprint Deformable registration of diffusion tensor MR images with explicit orientation optimization
    Hui Zhang
    Penn Image Computing and Science Laboratory PICSL, Department of Radiology, University of Pennsylvania, 3600 Market Street, Suite 370, Philadelphia, PA 19104, USA
    Med Image Anal 10:764-85. 2006
    ..The alignment of white matter structures is assessed using a novel scheme of computing distances between the corresponding fiber bundles derived from tractography...
  17. pmc Heterogeneity of functional activation during memory encoding across hippocampal subfields in temporal lobe epilepsy
    Sandhitsu R Das
    Penn Image Computing and Science Laboratory PICSL, Department of Radiology, University of Pennsylvania, PA, USA
    Neuroimage 58:1121-30. 2011
    ..DG was also found to be more active than CA1 in controls, but not in patients' epileptogenic side. These preliminary results will encourage further research on the utility of subfield-based biomarkers in TLE...
  18. ncbi request reprint A tract-specific framework for white matter morphometry combining macroscopic and microscopic tract features
    Hui Zhang
    Penn Image Computing and Science Laboratory, Department of Radiology, University of Pennsylvania, Philadelphia, USA
    Med Image Comput Comput Assist Interv 12:141-9. 2009
    ..We show that, compared to using microscopic features alone, combining the macroscopic and microscopic features gives a more holistic characterization of the disease...
  19. pmc Hippocampal volumetry and functional MRI of memory in temporal lobe epilepsy
    Dawn Mechanic-Hamilton
    Center for Functional Neuroimaging, University of Pennsylvania, Philadelphia, PA, USA
    Epilepsy Behav 16:128-38. 2009
    ..These findings support continued investigation of the utility of MRI and fMRI in the presurgical evaluation of TLE...
  20. ncbi request reprint Automatic cardiac MRI segmentation using a biventricular deformable medial model
    Hui Sun
    Penn Image Computing and Science Laboratory PICSL, Department of Radiology, University of Pennsylvania, Philadelphia, USA
    Med Image Comput Comput Assist Interv 13:468-75. 2010
    ..Segmentation performance is evaluated by comparing to manual segmentation in a heterogeneous adult MRI dataset. Average boundary displacement error is under 1.4 mm for left and right ventricles, comparing favorably with published work...
  21. ncbi request reprint Tensor-based morphometry of fibrous structures with application to human brain white matter
    Hui Zhang
    Penn Image Computing and Science Laboratory, Department of Radiology, University of Pennsylvania, USA
    Med Image Comput Comput Assist Interv 12:466-73. 2009
    ..In this paper, we describe the theoretical framework of our approach in detail and illustrate its application to study brain white matter. Our results show that additional insights can be gained with the proposed analysis...
  22. pmc Semi-automated mitral valve morphometry and computational stress analysis using 3D ultrasound
    Alison M Pouch
    Department of Bioengineering, University of Pennsylvania, Philadelphia, PA, USA
    J Biomech 45:903-7. 2012
    ..Rt-3DTEE, semi-automated leaflet segmentation, 3D deformable modeling, and FEA modeling of the in vivo human MV is tenable and useful for evaluation of MV pathology...
  23. pmc Measuring longitudinal change in the hippocampal formation from in vivo high-resolution T2-weighted MRI
    Sandhitsu R Das
    Penn Image Computing and Science Laboratory PICSL, Department of Radiology, University of Pennsylvania, Philadelphia, PA, USA
    Neuroimage 60:1266-79. 2012
    ..Additionally, we present a preliminary study of atrophy rate measurements within hippocampal subfields using HF-MRI. Cross-sectional differences in atrophy rates were detected in several subfields...
  24. ncbi request reprint Deformable registration of diffusion tensor MR images with explicit orientation optimization
    Hui Zhang
    Department of Computer and Information Science, University of Pennsylvania, USA
    Med Image Comput Comput Assist Interv 8:172-9. 2005
    ..A comparison with affine registration for inter-subject normalization of 8 subjects shows that our algorithm improves the alignment of manually segmented white matter structures (corpus callosum and cortio-spinal tracts)...
  25. ncbi request reprint Parametric medial shape representation in 3-D via the Poisson partial differential equation with non-linear boundary conditions
    Paul A Yushkevich
    Department of Radiology, University of Pennsylvania, USA
    Inf Process Med Imaging 19:162-73. 2005
    ..In this paper, the representation is carefully defined and the results of fitting the hippocampus in a deformable templates framework are presented...
  26. ncbi request reprint Cardiac medial modeling and time-course heart wall thickness analysis
    Hui Sun
    Department of Radiology, University of Pennsylvania, Philadelphia, PA, USA
    Med Image Comput Comput Assist Interv 11:766-73. 2008
    ..We calculated the mean heart wall thickness map of 90 subjects for different phases of the cardiac cycle, as well as the mean thickness change between phases...
  27. pmc Structure specific analysis of the hippocampus in temporal lobe epilepsy
    Sandhitsu R Das
    Penn Image Computing and Science Laboratory, Department of Radiology, University of Pennsylvania, Philadelphia, Pennsylvania, USA
    Hippocampus 19:517-25. 2009
    ..Summary measurements generated by integrating quantities of interest over the entire hippocampus can also be used, as is done in conventional ROI analysis...
  28. pmc N4ITK: improved N3 bias correction
    Nicholas J Tustison
    Department of Radiology, University of Pennsylvania, Philadelphia, PA 19140, USA
    IEEE Trans Med Imaging 29:1310-20. 2010
    ..Performance assessment is demonstrated using simulated data from the publicly available Brainweb database, hyperpolarized (3)He lung image data, and 9.4T postmortem hippocampus data...
  29. pmc Structure-specific statistical mapping of white matter tracts
    Paul A Yushkevich
    Penn Image Computing and Science Laboratory, Department of Radiology, University of Pennsylvania, Philadelphia, PA, USA
    Neuroimage 41:448-61. 2008
    ..The framework is demonstrated in a study of white matter differences in pediatric chromosome 22q11.2 deletion syndrome...
  30. pmc Bias in estimation of hippocampal atrophy using deformation-based morphometry arises from asymmetric global normalization: an illustration in ADNI 3 T MRI data
    Paul A Yushkevich
    Department of Radiology, University of Pennsylvania, Philadelphia, PA 19104, USA
    Neuroimage 50:434-45. 2010
    ..This bias appears to be the result of asymmetry in the interpolation of baseline and followup images during longitudinal image registration. Correcting this asymmetry leads to bias-free atrophy estimation...
  31. doi request reprint Statistical assessment of normal mitral annular geometry using automated three-dimensional echocardiographic analysis
    Alison M Pouch
    Department of Bioengineering, University of Pennsylvania, Philadelphia, Pennsylvania Gorman Cardiovascular Research Group, University of Pennsylvania, Philadelphia, Pennsylvania
    Ann Thorac Surg 97:71-7. 2014
    ....
  32. pmc Increased functional connectivity within medial temporal lobe in mild cognitive impairment
    Sandhitsu R Das
    Penn Image Computing and Science Laboratory PICSL, Department of Radiology, University of Pennsylvania, Philadelphia, Pennsylvania, USA
    Hippocampus 23:1-6. 2013
    ..This dissociation of changes in functional connectivity within the MTL versus the MTL's connection with other neocortical structures can help enrich the characterization of early stages of disease progression in AD...
  33. pmc Cerebral cortical folding analysis with multivariate modeling and testing: Studies on gender differences and neonatal development
    Suyash P Awate
    Penn Image Computing and Science Laboratory, Department of Radiology, University of Pennsylvania, USA
    Neuroimage 53:450-9. 2010
    ..The paper presents two cross-sectional studies applying the proposed framework to study folding differences between genders and in neonates with complex congenital heart disease. Both studies lead to novel interesting results...
  34. pmc Histology-derived volumetric annotation of the human hippocampal subfields in postmortem MRI
    Daniel H Adler
    Penn Image Computing and Science Laboratory PICSL, Department of Radiology, University of Pennsylvania, 3600 Market Street, Suite 370, Philadelphia, PA 19104, USA Department of Bioengineering, University of Pennsylvania, USA Electronic address
    Neuroimage 84:505-23. 2014
    ..The methods presented and evaluated in this single-subject study can potentially be applied to multiple hippocampal tissue samples in order to construct a histologically informed MRI atlas of the hippocampal formation. ..
  35. ncbi request reprint Guiding automatic segmentation with multiple manual segmentations
    Hongzhi Wang
    Department of Radiology, University of Pennsylvania, USA
    Med Image Comput Comput Assist Interv 15:429-36. 2012
    ..In a brain image segmentation problem, where for each image six manual segmentations are available, we show that jointly estimating several manual segmentations produces significant improvement over independently estimating each of them...
  36. ncbi request reprint Multivariate high-dimensional cortical folding analysis, combining complexity and shape, in neonates with congenital heart disease
    Suyash P Awate
    Penn Image Computing and Science Lab PICSL, University of Pennsylvania, USA
    Inf Process Med Imaging 21:552-63. 2009
    ..The framework is validated via simulated and clinical data. The paper is the first to quantitatively evaluate cortical folding in neonates with complex congenital heart disease...
  37. pmc The optimal template effect in hippocampus studies of diseased populations
    Brian B Avants
    Department of Radiology, University of Pennsylvania, Philadelphia, PA 19104, USA
    Neuroimage 49:2457-66. 2010
    ..Furthermore, explicit geometric optimization of the shape component of the unbiased template positively impacts the study of diseased hippocampi...
  38. ncbi request reprint 3D cerebral cortical morphometry in autism: increased folding in children and adolescents in frontal, parietal, and temporal lobes
    Suyash P Awate
    Penn Image Computing and Science Lab, University of Pennsylvania, USA
    Med Image Comput Comput Assist Interv 11:559-67. 2008
    ..In these ways, this paper not only strengthens some previous clinical findings, but also extends the state of the art in autism research...
  39. ncbi request reprint Gender differences in cerebral cortical folding: multivariate complexity-shape analysis with insights into handling brain-volume differences
    Suyash P Awate
    Penn Image Computing and Science Lab, University of Pennsylvania, USA
    Med Image Comput Comput Assist Interv 12:200-7. 2009
    ....
  40. pmc Development of a semi-automated method for mitral valve modeling with medial axis representation using 3D ultrasound
    Alison M Pouch
    Department of Bioengineering, University of Pennsylvania, Philadelphia, PA 19104, USA
    Med Phys 39:933-50. 2012
    ..Toward this goal, the authors have developed a user-initialized algorithm for reconstructing valve geometry from transesophageal 3D ultrasound (3D US) image data...
  41. pmc Standing on the shoulders of giants: improving medical image segmentation via bias correction
    Hongzhi Wang
    Department of Radiology, University of Pennsylvania, USA
    Med Image Comput Comput Assist Interv 13:105-12. 2010
    ..We apply this methodology on three segmentation problems/methods and show significant improvements for all of them...
  42. pmc Continuous medial representation of brain structures using the biharmonic PDE
    Paul A Yushkevich
    Penn Image Computing and Science Laboratory, Department of Radiology, University of Pennsylvania, 3600 Market St, Ste 370, Philadelphia, PA 19104, USA
    Neuroimage 45:S99-110. 2009
    ..The approach is evaluated by generating continuous medial models for a large dataset of hippocampus shapes. Generalizations to modeling more complex shapes and to representing branching skeletons are demonstrated...

Research Grants6

  1. Computational methods for regional hippocampal morphometry in AD
    Paul Yushkevich; Fiscal Year: 2007
    ....
  2. Object-Centric Computational Model for Imaging Analysis
    Paul Yushkevich; Fiscal Year: 2007
    ....
  3. Accessibility Enhancements for ITK-SNAP 3D Medical Image Segmentation Software
    Paul Yushkevich; Fiscal Year: 2007
    ..The proposed effort will make the tool more accessible and available to more biomedical researchers and, subsequently, will have an impact on the cost-efficiency and accuracy of various clinical studies and intervention procedures. ..
  4. Novel Imaging Biomarkers for Treatment Evaluation in Neurodegenerative Disorders
    Paul A Yushkevich; Fiscal Year: 2010
    ..If successful, this project may result in more clinical trials being launched and a greater likelihood of finding a cure for Alzheimer's disease. ..