Perelman School of Medicine at the University of Pennsylvania

Section for Biomedical Image Analysis (SBIA)

Jimit Doshi, M.S.


Application Developer

Section of Biomedical Image Analysis
Center for Biomedical Image Computing & Analytics
Department of Radiology
Perelman School of Medicine
University of Pennsylvania

Goddard Laboratories, Floor 6
3710 Hamilton Walk
Philadelphia, PA 19104
fax: (001) 215.573.1811
email: Jimit.Doshi@uphs.upenn.edu
LinkedIn: https://www.linkedin.com/in/jimitdoshij
 



Educational Qualifications

M.S. in Biomedical Engineering- Drexel University (US)
B.E. in Biomedical Engineering - University of Mumbai (Mumbai, India)


Research Summary

My main research areas are image segmentation and multivariate pattern analysis using statistical models and machine learning tools. Together with method development, I am also responsible for management, planning and implementation of structural MRI processing and analysis pipelines for several large scale clinical imaging studies involving thousands of subjects and various diseases and conditions, such as normal aging, Alzheimer’s disease, diabetes, brain development etc. I supervised the implementation and application of the MRI processing pipeline, designed the quality control protocols applied on final and intermediate results, and assisted collaborators in interpretation and analysis of the MRI data.


Honors

  • 2016: One of the 5 most highly cited papers published in Academic Radiology (link)
  • 2014: Placed 3rd on the Alzheimer’s Disease Big Data DREAM Challenge #1(3) (link, team “pythia”)
  • 2013: First rank in MICCAI 2013 MICCAI Challenge Workshop on Segmentation: Algorithms, Theory and Applications ("SATA");
  • 2013: Ranked 4th on the “Top 25 Hottest Articles” on Science Direct


Publications

Last updated in Dec 2016. For the latest  information, please refer to the Google Scholar profile.

Journals

  1. Advanced brain aging: relationship with epidemiologic and genetic risk factors, and overlap with Alzheimer disease atrophy patterns. M Habes, D Janowitz, G Erus, JB Toledo, SM Resnick, J Doshi, S Van der Auwera, K Wittfeld, K Hegenscheid, N Hosten, R Biffar, G Homuth, H Völzke, HJ Grabe, W Hoffmann, C Davatzikos. 2016. 4, s.l. : Nature Publishing Group, 4 1, 2016, Translational Psychiatry, Vol. 6, p. e775.
  2. Alzheimer's disease pattern of brain atrophy predicts cognitive decline in Parkinson's disease. Daniel Weintraub, Nicole Dietz, John E Duda, David A Wolk, Jimit Doshi, Sharon X Xie, Christos Davatzikos, Christopher M Clark, Andrew Siderowf. 2012. 1, s.l. : Oxford University Press, 1 1, 2012, Brain, Vol. 135, pp. 170-180.
  3. An Alzheimer’s Disease-Derived Biomarker Signature Identifies Parkinson’s Disease Patients with Dementia. Yosef Berlyand, Daniel Weintraub, Sharon X Xie, Ian A Mellis, Jimit Doshi, Jacqueline Rick, Jennifer McBride, Christos Davatzikos, Leslie M Shaw, Howard Hurtig, John Q Trojanowski, Alice S Chen-Plotkin. 2016. 1, s.l. : Public Library of Science, 1 26, 2016, PloS one, Vol. 11, p. e0147319.
  4. Association of hearing impairment with brain volume changes in older adults. FR Lin, Luigi Ferrucci, Yang An, JO Goh, Jimit Doshi, EJ Metter, Christos Davatzikos, Michael A Kraut, Susan M Resnick. 2014. s.l. : Academic Press, 4 15, 2014, Neuroimage, Vol. 90, pp. 84-92.
  5. Common and Dissociable Dysfunction of the Reward System in Bipolar and Unipolar Depression. Theodore Satterthwaite, Joseph Kable, Lillie Vandekar, Natalie Katchma, Danielle Bassett, Claudia Baldassano, Kosha Ruparel, Mark Elliott, Yvette Sheline, Ruben Gur, Raquel Gur, Christos Davatzikos, Ellen Leibenluft, Michael Thase, Daniel Wolf. 2015. 2015, Neuropsychopharmacology, Vol. 40, pp. 2258–2268.
  6. Control-group feature normalization for multivariate pattern analysis of structural MRI data using the support vector machine. Kristin A Linn, Bilwaj Gaonkar, Theodore D Satterthwaite, Jimit Doshi, Christos Davatzikos, Russell T Shinohara. 2016. s.l. : Academic Press, 2 23, 2016, NeuroImage.
  7. Correlating Cognitive Decline with White Matter Lesion and Brain Atrophy Magnetic Resonance Imaging Measurements in Alzheimer’s Disease. Michel Bilello, Jimit Doshi, S Ali Nabavizadeh, Jon B Toledo, Guray Erus, Sharon X Xie, John Q Trojanowski, Xiaoyan Han, Christos Davatzikos. 2015. Preprint, s.l. : IOS Press, 10 27, 2015, Journal of Alzheimer's Disease, pp. 1-8.
  8. Crowdsourced estimation of cognitive decline and resilience in Alzheimer's disease. Genevera I Allen, et al. 2016. s.l. : Elsevier, 4 11, 2016.
  9. Design and methods of the NiCK study: neurocognitive assessment and magnetic resonance imaging analysis of children and young adults with chronic kidney disease. Erum A Hartung, Nina Laney, Ji Young Kim, Rebecca L Ruebner, John A Detre, Hua-Shan Liu, Christos Davatzikos, Guray Erus, Jimit J Doshi, Robert T Schultz, John D Herrington, Abbas F Jawad, Divya G Moodalbail, Ruben C Gur, Allison M Port, Jerilynn Radcliff. 2015. 1, s.l. : BioMed Central, 4 30, 2015, BMC nephrology, Vol. 16.
  10. Diagnostic potential of structural neuroimaging for depression from a multi-ethnic community sample. Anjali Sankar, Tianhao Zhang, Bilwaj Gaonkar, Jimit Doshi, Guray Erus, Sergi G Costafreda, Lauren Marangell, Christos Davatzikos, Cynthia HY Fu. 2016. 4, s.l. : The Royal College of Psychiatrists, 7 1, 2016, British Journal of Psychiatry Open, Vol. 2, pp. 247-254.
  11. Heterogeneity of neuroanatomical patterns in prodromal Alzheimer’s disease: links to cognition, progression and biomarkers. Aoyan Dong, Jon B Toledo, Nicolas Honnorat, Jimit Doshi, Erdem Varol, Aristeidis Sotiras, David Wolk, John Q Trojanowski, Christos Davatzikos, Alzheimer’s Disease Neuroimaging Initiative. Oxford University Press, 2016. Brain. aww319
  12. High-Dimensional Pattern Classification of Brain Morphometric and DTI Data of Adult ADHD. Tiffany M Chaim, Maria Aparecida Silva, Erdem Varol, Jimit Doshi, Marcus V Zanetti, Bilwaj Gaonkar, Mauricio Serpa, Rodrigo M Vieira, Sheila C Caetano, Mario R Louza, Christos Davatzikos, Geraldo F Busatto. 2012. s.l. : ELSEVIER SCIENCE INC, 2012. BIOLOGICAL PSYCHIATRY. Vol. 71, pp. 190S-190S.
  13. Inflammatory Activity and Brain Volumes in Drug-Naive Patients with First-Episode Psychosis: A State-Dependent Study. Mauricio H Serpa, Jimit Doshi, Erica LM Viera, Tiffany M Chaim, Martinus T van de Bilt, Paulo Sallet, Wagner F Gattaz, Antonio L Teixeira, Geraldo F Busatto, Christos Davatzikos, Marcus V Zanetti. 2015. s.l. : ELSEVIER SCIENCE INC, 2015. BIOLOGICAL PSYCHIATRY. Vol. 77, pp. 361S-361S.
  14. Longitudinal imaging pattern analysis (SPARE-CD index) detects early structural and functional changes before cognitive decline in healthy older adults. Vanessa H Clark, Susan M Resnick, Jimit Doshi, Lori L Beason-Held, Yun Zhou, Luigi Ferrucci, Dean F Wong, Michael A Kraut, Christos Davatzikos. 2012. 12, s.l. : Elsevier, 12 31, 2012, Neurobiology of aging, Vol. 33, pp. 2733-2745.
  15. Longitudinal Study of State-Dependent Microstructural Brain Changes in Bipolar Disorder: Preliminary Report. Marcus V Zanetti, Rodrigo Machado-Vieira, Jimit Doshi, Tiffany M Chaim, Mauricio Serpa, Rafael T de Sousa, Wagner F Gattaz, Christos Davatzikos, Geraldo F Busatto. 2012. s.l. : ELSEVIER SCIENCE INC, 2012. BIOLOGICAL PSYCHIATRY. Vol. 71, pp. 197S-197S.
  16. Memory decline shows stronger associations with estimated spatial patterns of amyloid deposition progression than total amyloid burden. Rachel A Yotter, Jimit Doshi, Vanessa Clark, Jitka Sojkova, Yun Zhou, Dean F Wong, Luigi Ferrucci, Susan M Resnick, Christos Davatzikos. 2013. 12, s.l. : Elsevier, 12 31, 2013, Neurobiology of aging, Vol. 34, pp. 2835-2842.
  17. Multi-atlas skull-stripping. Jimit Doshi, Guray Erus, Yangming Ou, Bilwaj Gaonkar, Christos Davatzikos. 2013. 12, s.l. : Elsevier, 12 31, 2013, Academic radiology, Vol. 20, pp. 1566-1576.
  18. Multimodal magnetic resonance imaging study of treatment-naïve adults with attention-deficit/hyperactivity disorder. Tiffany M Chaim, Tianhao Zhang, Marcus V Zanetti, Maria Aparecida da Silva, Mário R Louzã, Jimit Doshi, Mauricio H Serpa, Fabio LS Duran, Sheila C Caetano, Christos Davatzikos, Geraldo F Busatto. 2014. 10, s.l. : Public Library of Science, 10 13, 2014, PloS one, Vol. 9, p. e110199.
  19. MUSE: MUlti-atlas region Segmentation utilizing Ensembles of registration algorithms and parameters, and locally optimal atlas selection. Jimit Doshi, Guray Erus, Yangming Ou, Susan M Resnick, Ruben C Gur, Raquel E Gur, Theodore D Satterthwaite, Susan Furth, Christos Davatzikos, Alzheimer's Neuroimaging Initiative. 2016. s.l. : Academic Press, 2 15, 2016, NeuroImage, Vol. 127, pp. 186-195.
  20. Neuroanatomical classification in a population-based sample of psychotic major depression and bipolar I disorder with 1 year of diagnostic stability. Mauricio H Serpa, Yangming Ou, Maristela S Schaufelberger, Jimit Doshi, Luiz K Ferreira, Rodrigo Machado-Vieira, Paulo R Menezes, Marcia Scazufca, Christos Davatzikos, Geraldo F Busatto, Marcus V Zanetti. 2014. s.l. : Hindawi Publishing Corporation, 1 19, 2014, BioMed research international, Vol. 2014.
  21. Neuroanatomical pattern classification in a population-based sample of first-episode schizophrenia. Marcus V Zanetti, Maristela S Schaufelberger, Jimit Doshi, Yangming Ou, Luiz K Ferreira, Paulo R Menezes, Marcia Scazufca, Christos Davatzikos, Geraldo F Busatto. 2013. s.l. : Elsevier, 6 3, 2013, Progress in Neuro-Psychopharmacology and Biological Psychiatry, Vol. 43, pp. 116-125.
  22. Neuroanatomical Pattern Classification in Unmedicated First-Episode Psychosis: Influence of Different Imaging Feature Selection. Mauricio H Serpa, Marcus V Zanetti, Erdem Varol, Tiffany M Chaim, Bilwaj Gaonkar, Jimit Doshi, Martinus T van de Bilt, Paulo C Sallet, Wagner F Gattaz, Geraldo F Busatto, Christos Davatzikos. 2012. s.l. : ELSEVIER SCIENCE INC, 2012. BIOLOGICAL PSYCHIATRY. Vol. 71, pp. 257S-257S.
  23. Neurodegeneration across stages of cognitive decline in Parkinson disease. Daniel Weintraub, Jimit Doshi, Deepthi Koka, Christos Davatzikos, Andrew D Siderowf, John E Duda, David A Wolk, Paul J Moberg, Sharon X Xie, Christopher M Clark. 2011. 12, s.l. : American Medical Association, 12 12, 2011, Archives of Neurology, Vol. 68, pp. 1562-1568.
  24. Relationship between APOE Genotype and Structural MRI Measures throughout Adulthood in the Study of Health in Pomerania Population-Based Cohort. Mohamad Habes, Jon B Toledo, Susan M Resnick, Jimit Doshi, Sandra Van der Auwera, Guray Erus, Deborah Janowitz, Katrin Hegenscheid, Georg Homuth, Henry Völzke, Wolfgang Hoffmann, Hans J Grabe, Christos Davatzikos. American Society of Neuroradiology, 2016, American Journal of Neuroradiology, Vol 37(9), 1636-1642
  25. Right ventricle segmentation from cardiac MRI: A collation study. Caroline Petitjean, Maria A Zuluaga, Wenjia Bai, Jean-Nicolas Dacher, Damien Grosgeorge, Jérôme Caudron, Su Ruan, Ismail Ben Ayed, M Jorge Cardoso, Hsiang-Chou Chen, Daniel Jimenez-Carretero, Maria J Ledesma-Carbayo, Christos Davatzikos, Jimit Doshi, Gura. 2015. 1, s.l. : Elsevier, 1 31, 2015, Medical image analysis, Vol. 19, pp. 187-202.
  26. Structural Brain Abnormalities in Youth With Psychosis Spectrum Symptoms. Satterthwaite, Theodore, et al. 2016. 5, 5 2016, JAMA Psychiatry, Vol. 73, pp. 515-524.
  27. Systematic review of structural and functional neuroimaging findings in children and adults with CKD. Divya G Moodalbail, Kathryn A Reiser, John A Detre, Robert T Schultz, John D Herrington, Christos Davatzikos, Jimit J Doshi, Guray Erus, Hua-Shan Liu, Jerilynn Radcliffe, Susan L Furth, Stephen R Hooper. 2013. 8, s.l. : American Society of Nephrology, 8 7, 2013, Clinical Journal of the American Society of Nephrology, Vol. 8, pp. 1429-1448.
  28. White matter hyperintensities and imaging patterns of brain ageing in the general population. Mohamad Habes, Guray Erus, Jon B Toledo, Tianhao Zhang, Nick Bryan, Lenore J Launer, Yves Rosseel, Deborah Janowitz, Jimit Doshi, Sandra Van der Auwera, Bettina von Sarnowski, Katrin Hegenscheid, Norbert Hosten, Georg Homuth, Henry Völzke, Ulf Schminke, W. 2016. s.l. : Oxford University Press, 2 23, 2016, Brain, p. aww008.
  29. White matter hyperintensities are more highly associated with preclinical Alzheimer's disease than imaging and cognitive markers of neurodegeneration. Benjamin M Kandel, Brian B Avants, James C Gee, Corey T McMillan, Guray Erus, Jimit Doshi, Christos Davatzikos, David A Wolk, Alzheimer's Disease Neuroimaging Initiative. 2016. s.l. : Elsevier, 4 7, 2016, Alzheimer's & Dementia: Diagnosis, Assessment & Disease Monitoring.

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Conferences

  1. Attribute similarity and mutual-saliency weighting for registration and label fusion. Yangming Ou, Jimit Doshi, Guray Erus, Christos Davatzikos. 2012. 2012. MICCAI Workshop on Multi-Atlas Segmentation. pp. 95-98.
  2. Ensemble-based medical image labeling via sampling morphological appearance manifolds. Jimit Doshi, Guray Erus, Yangming Ou, Christos Davatzikos. 2013. Nagoya, Japan : s.n., 2013. MICCAI Challenge Workshop on Segmentation: Algorithms, Theory and Applications.
  3. Multi-atlas segmentation of the cardiac MR right ventricle. Yangming Ou, Jimit Doshi, Guray Erus, Christos Davatzikos. 2012. Nice, France : s.n., 2012. Proceedings of 3D Cardiovascular Imaging. In: Proceedings of 3D Cardiovascular Imaging: A MICCAI Segmentation Challenge.
  4. Multi-atlas segmentation of the prostate: A zooming process with robust registration and atlas selection. Yangming Ou, Jimit Doshi, Guray Erus, Christos Davatzikos. 2012. Nice, France : s.n., 2012. MICCAI Grand Challenge: Prostate MR Image Segmentation: Prostate MR Image Segmentation 2012 (PROMISE12).
  5. Multi-atlas segmentation of the right ventricle in cardiac mri. Yanming Ou, Jimit Doshi, Guray Erus, Christos Davatzikos. 2012. 2012. Proc. MICCAI RV Segmentation Challenge.

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Abstracts

  1. Association of brain atrophy and vascular white matter lesions with CERAD score in Alzheimer's disease. Michel Bilello, Jimit Doshi, Sharon Xie, Steven Arnold, Christos Davatzikos. Elsevier, 2011, Alzheimer's & Dementia, Vol 7(4)
  2. Deviations from a model of estimated spatiotemporal patterns of amyloid deposition in healthy aging are predictive of cognitive decline. Rachel Yotter, Jimit Doshi, Bilwaj Gaonkar, Vanessa Clark, Jitka Sojkova, Yungui Zhou, Dean Wong, Susan Resnick, Christos Davatzikos. 2013. 4, s.l. : Elsevier, 1 7, 2013, Alzheimer's & Dementia: The Journal of the Alzheimer's Association, Vol. 9, pp. P14-P15.
  3. Multiparametric processing of serial mri during radiation therapy of brain tumors:‘finishing with flair?’. BC Baumann, BK Teo, K Pohl, Y Ou, J Doshi, M Alonso-Basanta, J Christodouleas, C Davatzikos, GD Kao, JF Dorsey. 2011. International Journal of Radiation Oncology* Biology* Physics. 10 1, 2011, Vol. 81, 2, p. S794.
  4. Spatial heterogeneity of patterns of cortical amyloid deposition in healthy aging and its relationship to memory decline. Rachel Yotter, Jimit Doshi, Vanessa Clark, Jitka Sojkova, Yungui Zhou, Dean Wong, Luigi Ferrucci, Susan Resnick, Christos Davatzikos. 2012. 4, s.l. : Elsevier, 1 7, 2012, Alzheimer's & Dementia: The Journal of the Alzheimer's Association, Vol. 8, pp. P49-P50.

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Software

  • Multi Atlas Skull Stripping (MASS)
    • MASS, is a software package designed for robust and accurate brain extraction, applicable for both individual as well as large population studies.
  • MUSE: MUlti-atlas region Segmentation utilizing Ensembles of registration algorithms and parameters, and locally optimal atlas selection
    • MUSE generates a large ensemble of candidate labels in the target image space using multiple atlases, registration algorithms and smoothness values for these algorithms. The ensemble is then fused into a final segmentation.

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