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   Refereed Publications of Mirza Faisal Beg        

Refereed journal publications

  1. Yue Cui, Darren M Lipnicki, Mirza Faisal Beg, Jesse S Jin, Suhuai Luo, Wanlin Zhu, Nicole A Kochan, Simone Reppermund, Lin Zhuang, Pradeep R Ramana, Tao Liu, Julian N Trollor, Lei Wang, Henry Brodaty, Perminder S Sachdev, Automated detection of amnestic mild cognitive impairment in community-dwelling elderly adults: a combined spatial atrophy and white matter alteration approach, ISSN 1053-8119, 10.1016/j.neuroimage.2011.08.013.

  2. Heather L. More, Jingyun Chen, Eli Gibson, J. Maxwell Donelan, Mirza Faisal Beg, A semi-automated method for identifying and measuring myelinated nerve fibers in scanning electron microscope images, Journal of Neuroscience Methods, 201 (2011) 149–158.

  3. Mei Young, Evgeniy Lebed, Yifan Jian,  Paul J. Mackenzie,  Mirza Faisal Beg, and Marinko V. Sarunic, Real-time high-speed volumetric imaging using compressive sampling optical coherence tomography Biomedical Optics Express, Vol. 2 Issue 9, pp.2690-2697 (2011)

  4. Ali Khan, Nicolas Cherbuin, Kaarin Anstey, Perminder Sachdev, Mirza Faisal Beg, Optimal weights for local multi-atlas fusion using supervised learning and dynamic information (SuperDyn): validation on hippocampus segmentation, Neuroimage (impact factor 5.7), Volume 56, Issue 1, 126-139, 2011.

  5. Michael Valenzuela, David Bartes-Faz, Mirza Faisal Beg, Alex Fornito, Emilio Merlo-Pich, Ulrich Müller, Dost Öngür, Arthur Toga, Murat Yücel, Neuroimaging as Endpoints in Clinical Trials: Perspective from the first Provence Workshop, Neuroscience & Biobehavioural Reviews, Journal of Molecular Psyciatry, 2011.

  6. Sieun Lee, Mei Young, Marinko Sarunic, Mirza Faisal Beg, "End-to-end pipeline for spectral domain optical coherence tomography and morphometric analysis of human optic nerve head". Accepted in the Special Issue "Advances in Clinical and Biomedical engineering", Journal of Medical and Biomedical Engineering, 2010.

  7. M. Sulman,  JF Williams, Mirza Faisal Beg and Bob Russell, Volumetric Image Registration Methods based on Solving the Monge-Ampere Equation, Canadian Applied Mathematics Quarterly, Vol 17, Number 3,  2010.

  8. Elvan Ceyhan, Mirza Faisal Beg, Can Ceritoglu, Lei Wang, John C. Morris, John G. Csernansky, Michael I. Miller, J. Tilak Ratnanather, Quantization and Analysis of Hippocampal Morphometric Changes Due to Dementia of Alzheimer Type Using Metric Distances Based on Large Deformation Diffeomorphic Metric Mapping, Journal of Computerized Medical Imaging and Graphics, Jan 21, 2011.

  9. Paul R. Borghesania, Kurt E. Weaver, Elizabeth H. Aylward, Anne L. Richards, Tara M. Madhyastha, Ali R. Khan, Olivia Liang, Rachel L. Ellenbogen, Mirza Faisal Beg, K. Warner Schai and Sherry L. Willis, Midlife memory improvement predicts preservation of hippocampal volume in old age, Neurobiology of Aging”, November 2010.

  10. Eli Gibson, Mei Young, Marinko Sarunic, Mirza Faisal Beg.  Optic Nerve Head Registration via Hemispherical Surface and Volume Registration. IEEE Trans Biomed Eng (impact factor 2.5). 57(10), 2592 – 2595, 2010.  

  11. Marinko Sarunic, Azadeh Yazdanpanah, Eli Gibson, Jing Xu, Yujing Bai, Sieun Lee, Uri Saragovi, Mirza Faisal Beg, Longitudinal Study of Retinal Degeneration in Rats using Spectral Domain Optical Coherence Tomography, Opt. Express 18, 23435-23441 (2010).

  12. Eli Gibson, Mei Young, Marinko Sarunic, Mirza Faisal Beg. Optic Nerve Head Registration via Hemispherical Surface and Volume Registration. IEEE Trans Biomed Eng. 57(10), 2592 – 2595, 2010.

  13. Evgeniy Lebed, Paul Mackenzie, Marinko Sarunic, Mirza.Faisal Beg, “Rapid Volumetric OCT Image Acquisition Using Compressive Sampling”, Optics Express, 18, 21003-21012 (2010).

  14. Lei Wang, Ali Khan, John Csernansky, Bruce Fischl, Michael Miller, John Morris, Mirza Faisal Beg. Fully-Automated, Multi-Stage Hippocampus Mapping in Very Mild Alzheimer Disease. Hippocampus, Special Issue on Computational Anatomy and Physiology of the Hippocampus, Volume 19, Issue 6, pages 541–548, June 2009.

  15. Mirza Faisal Beg, Stephen Wong, Ali Khan, Teresa Cheung, Naznin Virji-Babul, Anthony Herdman. External Landmark and Head Shape based Functional Data Normalization” in the Journal of Computerized Medical Imaging and Graphics, Journal of Computerized Medical Imaging and Graphics, Accepted April 18, 2009.

  16. Ali Khan, Lei Wang and Mirza Faisal Beg, FreeSurfer-Initiated Fully-Automated Sub-cortical Brain Segmentation in MRI Using Large Deformation Diffeomorphic Metric Mapping, NeuroImage (impact factor 5.559).

  17. Pankaj Sadaphal, Josna Rao and Mirza Faisal Beg, Image Processing Techniques for Identifying Mycobacterium Tuberculosis in Ziehl-Neelsen Stains, International Journal of Tuberculosis and Lung Disease (impact factor 2.035).

  18. Mirza Faisal Beg and Ali Khan. Symmetric Data Attachment Terms for Large Deformation Image Registration, IEEE Transactions on Medical Imaging 26(9), 1179-1189, 2007.

  19.  Lei Wang, Mirza Faisal Beg, J.T. Ratnanather, Can Ceritoglu, Laurent Younes, J.C. Morris, J.G. Csernansky, M. I. Miller, Large Deformation Diffeomorphism and Momentum Based Hippocampal Shape Discrimination in Dementia of the Alzheimer Type, IEEE Transactions on Medical Imaging, 26(4), 462-470, 2007.

  20.  Patrick Helm, Laurent Younes, Mirza Faisal Beg, Daniel Ennis, Christophe Leclercq, Owen Faris, Elliot McVeigh, David Kass, Michael I. Miller and Raimond Winslow, Evidence of Structural Remodeling in the Dyssynchronous Failing Heart, Circulation Research,  volume 98, pages 125-132, 2006. (18 Citations as of 11/18/2007)

  21.  Patrick Helm, Mirza Faisal Beg, Michael I. Miller, and R. L. Winslow (2005). Measuring and Mapping Cardiac Fiber and Laminar Architecture Using Diffusion Tensor MR Imaging. Annals of the New York Academy of Sciences 2005 1047: 296-307 (17 Citations as of 11/18/2007)

  22.  Michael Miller, Mirza Faisal Beg, Can Ceritogulu, and Craig Stark, Increasing the power of functional maps of the Medial Temporal Lobe using Large Deformation Metric Mapping, Proceedings of the National Academy of Sciences (PNAS)USA, volume 102, pages 9685-9690, 2005. (8 Citations as of 11/18/2007)

  23.  Mirza Faisal Beg, Patrick Helm, Elliot McVeigh, Raimond Winslow and Michael Miller, Computational Cardiac Anatomy Using Magnetic Resonance Imaging, Magnetic Resonance in Medicine, volume 52, issue 5, pages 1167-1174, 2004. (8 Citations as of 11/18/2007)

  24. Mirza Faisal Beg, Michael I. Miller, Laurent Younes, Alain Trouvé. “Computing Metrics via Geodesics on Flows of Diffeomorphisms.”  International Journal of Computer Vision, volume 61, issue 2, pages 139-157, 2005. (47 citations as of 11/18/2007)

  25. Zeynep Erim, Mirza Faisal Beg, David Burke and Carlo De Luca, Effects of Aging on motor unit firing behaviour, Journal of Neurophysiology, 82, 2081-2091, 1999. (63 citations as of 11/18/2007)

 

Refereed Conference Papers

  1. Jingyun Chen, Martin McKeown, Mirza Faisal Beg, Momentum-based morphometric analysis with application to Parkinson's disease, "Visualization, Image-Guided Procedures, and Modeling", SPIE 2010 Florida, USA.

  2. Ali Khan, Alain Trouve and Mirza Faisal Beg. Cross-sectional analysis of anatomical shape change over time via statistics on 4D within-subject flows, MICCAI 2010 Workshop on Spatio-Temporal Image Analysis for Longitudinal and Time-Series Image Data, September 2010.

  3. Mei Young, Sieun Lee, Eli Gibson, Kevin Hsu, Mirza Faisal Beg, Paul J. Mackenzie, Marinko V. Sarunic, “Morphometric analysis of the optic nerve head with optical coherence tomography,” Coherence Domain Optical Methods and Optical Coherence Tomography in Biomedicine XII, Photonics West, J. A. Izatt; J. G. Fujimoto; V.V. Tuchin, Editors, Proc. SPIE, Vol. 7554, 75542L, (2010).

  4.  Jingyun Chen, Martin McKeown, and Mirza Faisal Beg, Variability of basal ganglia morphology after spatial normalization: Implications for group studies. 33rd Conference of the Canadian Medical and Biological Engineering Society. Vancouver Canada.

  5. Jingyun Chen, Heather More, Max Donelan, and Mirza Faisal Beg, Automated methods for neuron segmentation and analysis of electron microscope images. 33rd Conference of the Canadian Medical and Biological Engineering Society. Vancouver Canada.

  6. Sieun Lee, Mei Young, Paul Mackenzie, Mirza Faisal Beg, Marinko Sarunic, "Morphometry of the myopic optic never head using Fourier domain optical coherence tomography," Optical Coherence Tomography and Coherence Domain Optical Methods in Biomedicine XIV, Photonics West, J. G. Fujimoto; J. A. Izatt; V. V. Tuchin, Editors, Proc. SPIE, Vol. 7889, (Jan 2011).

  7. Sieun Lee, Mei Young, Marinko V. Sarunic, Mirza Faisal Beg, "End-to-end pipeline for Fourier domain optical coherence tomography of human optic nerve head" presented at The 33rd Conference of the Canadian Medical and Biological Engineering Society (CMBEC33), Vancouver, BC. July 12, 2010.

  8. Ali Khan and Mirza Faisal Beg. Multi-structure LDDMM Brain Registration and Population Average. Accepted in the IEEE-EMBC Conference 2009.

  9. Eli Gibson, Ali Khan and Mirza Faisal Beg. A combined Surface and VOlumetric registration (SAVOR) framework to study cortical biomarkers and functional neuroimaging data. Volume 5761, Pages 713-720, Proceedings of the Medical Image Computing and Computer-Assisted Intervention – MICCAI 2009.

  10. Ali Khan, Moo Chung and Mirza Faisal Beg, Robust atlas-based brain segmentation using multi-structure confidence-weighted registration Volume 5762, Pages 549-557, Proceedings of the Medical Image Computing and Computer-Assisted Intervention – MICCAI 2009.

  11.  Yonas Weldeselassie, Ghassan Hamarneh, Mirza Faisal Beg, and Stella Atkins. Novel Decomposition of Tensor Distance into Shape and Orientation Distances. In Medical Image Computing and Computer-Assisted Intervention Workshop on Diffusion Modelling and the Fibre Cup (MICCAI DMFB), 2009.

  12. Jingyun Chen, Samantha J. Palmer, Ali R. Khan, Martin J. McKeown, Mirza Faisal Beg, Freesurfer-Initialized Large Deformation Diffeomorphic Metric Mapping with application to Parkinson's Disease, SPIE Symposium on Medical Imaging 2009.

  13. Joaquin Andres Hoffer, Eli Gibson, Burkhard Mädler, Mirza Faisal Beg. Estimation of Nerve Dimensions from MRI of the Human Thigh. Int’l. Functional Electrical Stimulation Soc., 13th Ann. Conf., Freiburg, Germany, Pages 51-53, Sept. 2008.

  14. Lei Wang, Ali Khan, John Csernansky, Bruce Fischl, Michael Miller, John Morris and Mirza Faisal Beg. Fully-automated multi-stage Hippocampus Mapping in very mild Alzheimer Disease. Proceedings of the Medical Image Computing and Computer Assisted Intervention 2008 workshop on Computational Anatomy and Physiology of the hippocampus, Pages 28-40, September 2008.

  15. Ryan Dickie and Mirza Faisal Beg, Two Novel Methods of Computing the Cardiac Mid-Wall, International Symposium of Biomedical Imaging, May 2008

  16. Ali Khan and Mirza Faisal Beg, Representation of Time-varying shapes in the Large Deformation Diffeomorphic Metric Mapping Framework, International Symposium of Biomedical Imaging, May 2008

  17. Vinay Kotamraju and Mirza Faisal Beg, Automated Detection of Cardiac MR tags and calculation of cardiac strain using Large Deformation Metric Mapping. Proceedings of SPIE - Volume 6512,  March 2007, Medical Imaging

  18. Mirza Faisal Beg, Ryan Dickie and Laurent Younes. Consistent realignment of Diffusion Tensor Eigenvectors. Proceedings of SPIE - Volume 6512,  March 2007, Medical Imaging

  19. Elvan. Ceyhan, L. Fong, T. N. Tasky, Monica. Hurdal, Mirza Faisal Beg, Maryanne Martone, and John. Ratnanather, Type-Specific Analysis of Morphometry of Dendrite Spines of Mice, Proceedings of the 5th International Symposium on Image and Signal Processing and Analysis, 2007.

  20. Elvan Ceyhan, R. Ç. Ölken, L. Fong, T. N. Tasky, Monica Hurdal, Mirza Faisal Beg, Maryanne E. Martone, John Ratnanather, Modeling metric distances of dendrite spines of mice based on morphometric measures in L. E. Akman, N. Baykal, T. Can, M. Iscan, U. E. Mumcuoglu (eds), Proceedings of the International Symposium on Health Informatics and Bioinformatics (HIBIT'07), 2007.

  21. Mirza Faisal Beg and Ali Khan (Invited Paper).  Computation of Average Atlas using LDDMM and Geodesic Shooting. IEEE International Symposium on Biomedical Imaging: From Nano to Macro, Special Session on the use of shape in biomedical image formation, modeling, and analysis, April, 2006.

  22. Ali Khan, Elizabeth Aylward, Patrick Barta, Michael Miller, Mirza Faisal Beg, Semi-automated Basal Ganglia Segmentation Using Large Deformation Diffeomorphic Metric Mapping, Medical Image Computing and Computer Assisted Intervention - Lecture Notes in Computer Science, Volume 3749, Sep 2005, Pages 238 - 245.

  23. Gregory Golds and Mirza Faisal Beg, Computing the thickness of 3D ventricular wall from MRI images and morphological segmentation of the ventricles from binary anatomical cardiac images. Proceedings of the SPIE-Medical Imaging Conference, Volume 5747, April, 2005, pp 1925-1932.

  24. Jorge Jovicich, Mirza Faisal Beg, Steve Pieper, Carey Priebe, Michael Miller, Randy Buckner, Bruce Rosen, Morphometry BIRN (2005) "Biomedical Informatics Research Network: Integrating Multi-Site Neuroimaging Data Acquisition, Data Sharing and Brain Morphometric Processing." Proceedings of the 18th IEEE International Symposium on Computer-Based Medical Systems, June 2005.

  25. Gregory Golds and Mirza Faisal Beg, Computational Cardiac Anatomy: Computing the thickness of the heart wall using Laplace's equation.  Canadian Medical and Biological Engineering Conference, Quebec City, November 2004.

  26. Mirza Faisal Beg, Michael Miller, Alain Trouve, and Laurent Younes. The Euler-Lagrange equations for interpolating sequence of landmark datasets. Medical Image Computing and Computer-Assisted Intervention - MICCAI 2003, 6th International Conference, Montréal, Canada, November 15-18, 2003, Proceedings, Part II. Lecture Notes in Computer Science 2879 Springer 2003, pages 918-925.

  27. Mirza Faisal Beg, Michael Miller, Alain Trouvé, Laurent Younes, July 2002. “Computational Anatomy: Computing Metrics on Anatomical Shapes,” Proceedings of the 2002 IEEE Symposium on Biomedical Imaging, Washington D.C.

 

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