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1

Deep-Learning based Multiclass Retinal Fluid Segmentation and Detection in Optical Coherence Tomography Images using a Fully Convolutional Neural Network

Lu, Donghuan, Heisler, Morgan, Lee, Sieun, Ding, Gavin Weiguang, Navajas, Eduardo, Sarunic, Marinko V., Beg, Mirza Faisal

Journal:

Medical Image Analysis

Year:

2019

Language:

english

File:

PDF, 19.27 MB

english, 2019

2

Segmentation of the foveal microvasculature using deep learning networks

Prentašic, Pavle, Heisler, Morgan, Mammo, Zaid, Lee, Sieun, Merkur, Andrew, Navajas, Eduardo, Beg, Mirza Faisal, Šarunic, Marinko, Loncaric, Sven

Journal:

Journal of Biomedical Optics

Year:

2016

Language:

english

File:

PDF, 1.53 MB

english, 2016

3

Ensemble Deep Learning for Diabetic Retinopathy Detection Using Optical Coherence Tomography Angiography

Heisler, Morgan, Karst, Sonja, Lo, Julian, Mammo, Zaid, Yu, Timothy, Warner, Simon, Maberley, David, Beg, Mirza Faisal, Navajas, Eduardo V., Sarunic, Marinko V.

Journal:

Translational Vision Science & Technology

Year:

2020

File:

PDF, 3.94 MB

2020

4

Computational cardiac anatomy using MRI

Mirza Faisal Beg, Patrick A. Helm, Elliot McVeigh, Michael I. Miller, Raimond L. Winslow

Journal:

Magnetic Resonance in Medicine

Year:

2004

Language:

english

File:

PDF, 1.48 MB

english, 2004

5

Quantization and analysis of hippocampal morphometric changes due to dementia of Alzheimer type using metric distances based on large deformation diffeomorphic metric mapping

Elvan Ceyhan, Mirza Faisal Beg, Can Cerito˜glu, Lei Wang, John C. Morris, John G. Csernansky, Michael I. Miller, J.Tilak Ratnanather

Journal:

Computerized Medical Imaging and Graphics

Year:

2011

Language:

english

File:

PDF, 1.08 MB

english, 2011

6

External landmark and head-shape-based functional data normalization

Mirza Faisal Beg, Stephen Wong, Ali R. Khan, Teresa Cheung, Naznin Virji-Babul, Anthony Herdman

Journal:

Computerized Medical Imaging and Graphics

Year:

2009

Language:

english

File:

PDF, 2.23 MB

english, 2009

7

Measuring and Mapping Cardiac Fiber and Laminar Architecture Using Diffusion Tensor MR Imaging

PATRICK HELM, MIRZA FAISAL BEG, MICHAEL I. MILLER, RAIMOND L. WINSLOW

Journal:

Annals of the New York Academy of Sciences

Year:

2005

Language:

english

File:

PDF, 633 KB

english, 2005

8

Erratum to “A semi-automated method for identifying and measuring myelinated nerve fibers in scanning electron microscope images” [J. Neurosci. Methods 201 (2011) 149–158]

Heather L. More, Jingyun Chen, Eli Gibson, J. Maxwell Donelan, Mirza Faisal Beg

Journal:

Journal of Neuroscience Methods

Year:

2011

Language:

english

File:

PDF, 90 KB

english, 2011

9

A semi-automated method for identifying and measuring myelinated nerve fibers in scanning electron microscope images

Heather L. More, Jingyun Chen, Eli Gibson, J. Maxwell Donelan, Mirza Faisal Beg

Journal:

Journal of Neuroscience Methods

Year:

2011

Language:

english

File:

PDF, 2.34 MB

english, 2011

10

Real-time high-speed volumetric imaging using compressive sampling optical coherence tomography

Young, Mei, Lebed, Evgeniy, Jian, Yifan, Mackenzie, Paul J., Beg, Mirza Faisal, Sarunic, Marinko V.

Journal:

Biomedical Optics Express

Year:

2011

Language:

english

File:

PDF, 1.25 MB

english, 2011

11

Longitudinal study of retinal degeneration in a rat using spectral domain optical coherence tomography

Sarunic, Marinko V., Yazdanpanah, Azadeh, Gibson, Eli, Xu, Jing, Bai, Yujing, Lee, Sieun, Saragovi, H. Uri, Beg, Mirza Faisal

Journal:

Year:

2010

Language:

english

File:

PDF, 1.19 MB

english, 2010

12

Integrated high-dimensional cortical structural marker for very mild Alzheimer's disease

Jing Ming, Michael Harms, Matthew Colvin, Mirza Faisal Beg, John Morris, John Csernansky, Lei Wang

Journal:

Alzheimer's & Dementia

Year:

2011

Language:

english

File:

PDF, 271 KB

english, 2011

13

Differential diagnosis among Alzheimer's disease, frontotemporal disease and healthy aging: Comparative study using subcortical features

Pradeep Raamana, Lei Wang, Howard Rosen, Bruce Miller, Michael Weiner, Mirza Faisal Beg

Journal:

Alzheimer's & Dementia

Year:

2012

Language:

english

File:

PDF, 459 KB

english, 2012

14

Cortical thickness analysis in Alzheimer's onset

Evgeniy Lebed, Alain Trouvé, Mirza Faisal Beg

Journal:

Alzheimer's & Dementia

Year:

2012

Language:

english

File:

PDF, 352 KB

english, 2012

15

FreeSurfer-initiated fully-automated subcortical brain segmentation in MRI using Large Deformation Diffeomorphic Metric Mapping

Ali R. Khan, Lei Wang, Mirza Faisal Beg

Journal:

Year:

2008

Language:

english

File:

PDF, 1.09 MB

english, 2008

16

Optimal weights for local multi-atlas fusion using supervised learning and dynamic information (SuperDyn): Validation on hippocampus segmentation

Ali R. Khan, Nicolas Cherbuin, Wei Wen, Kaarin J. Anstey, Perminder Sachdev, Mirza Faisal Beg

Journal:

Year:

2011

Language:

english

File:

PDF, 1.98 MB

english, 2011

17

Automated detection of amnestic mild cognitive impairment in community-dwelling elderly adults: A combined spatial atrophy and white matter alteration approach

Yue Cui, Wei Wen, Darren M. Lipnicki, Mirza Faisal Beg, Jesse S. Jin, Suhuai Luo, Wanlin Zhu, Nicole A. Kochan, Simone Reppermund, Lin Zhuang, Pradeep Reddy Raamana, Tao Liu, Julian N. Trollor, Lei Wa

Journal:

Year:

2012

Language:

english

File:

PDF, 921 KB

english, 2012

18

Relationship between cortical thinning and cortical FDG hypometabolism in individuals with progressive MCI and Alzheimer's disease

Wang, Lei, Alpert, Kathryn, Tosun, Duygu, Wu, Minjie, Beg, Mirza Faisal, Weiner, Michael

Journal:

Alzheimer's & Dementia

Year:

2013

Language:

english

File:

PDF, 411 KB

english, 2013

19

The subclassification of amnestic MCI using MRI-based cortical thickness measures

Raamana, Pradeep, Wen, Wei, Kochan, Nicole, Brodaty, Henry, Sachdev, Perminder, Wang, Lei, Beg, Mirza Faisal

Journal:

Alzheimer's & Dementia

Year:

2013

Language:

english

File:

PDF, 883 KB

english, 2013

20

Relationship between cortical thinning and cortical FDG hypometabolism in individuals with progressive MCI and Alzheimer’s disease

Alpert, Kathryn, Wang, Lei, Tosun, Duygu, Wu, Minjie, Beg, Mirza Faisal, Weiner, Michael

Journal:

Alzheimer's & Dementia

Year:

2013

Language:

english

File:

PDF, 387 KB

english, 2013

21

The subclassifcation of amnestic MCI using MRI-based cortical thickness measures

Raamana, Pradeep, Wen, Wei, Kochan, Nicole, Brodaty, Henry, Sachdev, Perminder, Wang, Lei, Beg, Mirza Faisal

Journal:

Alzheimer's & Dementia

Year:

2013

Language:

english

File:

PDF, 620 KB

english, 2013

22

Treatment effects on hippocampal degeneration in dementia of the Alzheimer type

Csernansky, John, Wang, Lei, Mehta, Neha, Karagodin, Ilya, Beg, Mirza Faisal, Morris, John, Galvin, James

Journal:

Alzheimer's & Dementia

Year:

2011

Language:

english

File:

PDF, 72 KB

english, 2011

23

Multistructure Large Deformation Diffeomorphic Brain Registration

Khan, Ali R., Wang, Lei, Beg, Mirza Faisal

Journal:

IEEE Transactions on Biomedical Engineering

Year:

2013

Language:

english

File:

PDF, 845 KB

english, 2013

24

Automatic Cycle Averaging for Denoising Approximately Periodic Spatiotemporal Signals

Ding, Weiguang, Lin, Eric, Ribeiro, Amanda, Sarunic, Marinko V., Tibbits, Glen F., Beg, Mirza Faisal

Journal:

IEEE Transactions on Medical Imaging

Year:

2014

Language:

english

File:

PDF, 2.64 MB

english, 2014

25

[IEEE 2007 Canadian Conference on Electrical and Computer Engineering - Vancouver, BC, Canada (2007.04.22-2007.04.26)] 2007 Canadian Conference on Electrical and Computer Engineering - Enhanced Accuracy in Registration of Cortex Functional Data via Large-Deformation Differomorphic Maps

Makouei, Behrang Nosrat, Wang, Lei, Beg, Mirza Faisal

Year:

2007

Language:

english

File:

PDF, 675 KB

english, 2007

26

[IEEE 2008 5th IEEE International Symposium on Biomedical Imaging (ISBI 2008) - Paris, France (2008.05.14-2008.05.17)] 2008 5th IEEE International Symposium on Biomedical Imaging: From Nano to Macro - Representation of time-varying shapes in the large deformation diffeomorphic framework

Khan, Ali R., Beg, Mirza Faisal

Year:

2008

Language:

english

File:

PDF, 903 KB

english, 2008

27

[IEEE 2013 35th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC) - Osaka (2013.7.3-2013.7.7)] 2013 35th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC) - On identification of sinoatrial node in zebrafish heart based on functional time series from optical mapping

Weiguang Ding,, Lin, Eric, Ribeiro, Amanda, Sarunic, Marinko V., Tibbits, Glen F., Beg, Mirza Faisal

Year:

2013

Language:

english

File:

PDF, 562 KB

english, 2013

28

Quantitative Evaluation of Transform Domains for Compressive Sampling-Based Recovery of Sparsely Sampled Volumetric OCT Images

Wu, Andy Bo, Lebed, Evgeniy, Sarunic, Marinko V., Beg, Mirza Faisal

Journal:

IEEE Transactions on Biomedical Engineering

Year:

2013

Language:

english

File:

PDF, 1.76 MB

english, 2013

29

[IEEE 2008 5th IEEE International Symposium on Biomedical Imaging (ISBI 2008) - Paris, France (2008.05.14-2008.05.17)] 2008 5th IEEE International Symposium on Biomedical Imaging: From Nano to Macro - Two novel methods for computing the 3D cardiac midwall

Dickie, Ryan, Faisal Beg, Mirza

Year:

2008

Language:

english

File:

PDF, 999 KB

english, 2008

30

[IEEE 2013 35th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC) - Osaka (2013.7.3-2013.7.7)] 2013 35th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC) - Automatic detection of subretinal fluid and sub-retinal pigment epithelium fluid in optical coherence tomography images

Weiguang Ding,, Mei Young,, Bourgault, Serge, Sieun Lee,, Albiani, David A., Kirker, Andrew W., Forooghian, Farzin, Sarunic, Marinko V., Merkur, Andrew B., Beg, Mirza Faisal

Year:

2013

Language:

english

File:

PDF, 1.79 MB

english, 2013

31

Exact Surface Registration of Retinal Surfaces From 3-D Optical Coherence Tomography Images

Lee, Sieun, Lebed, Evgeniy, Sarunic, Marinko V., Beg, Mirza Faisal

Journal:

IEEE Transactions on Biomedical Engineering

Year:

2015

Language:

english

File:

PDF, 4.42 MB

english, 2015

32

Unified voxel- and tensor-based morphometry (UVTBM) using registration confidence

Khan, Ali R., Wang, Lei, Beg, Mirza Faisal

Journal:

Neurobiology of Aging

Year:

2015

Language:

english

File:

PDF, 3.25 MB

english, 2015

33

Thickness network features for prognostic applications in dementia

Raamana, Pradeep Reddy, Weiner, Michael W., Wang, Lei, Beg, Mirza Faisal

Journal:

Neurobiology of Aging

Year:

2015

Language:

english

File:

PDF, 2.77 MB

english, 2015

34

Comparative Analysis of Repeatability of Manual and Automated Choroidal Thickness Measurements in Nonneovascular Age-Related Macular Degeneration

Lee, Sieun, Fallah, Nader, Forooghian, Farzin, Ko, Ashley, Pakzad-Vaezi, Kaivon, Merkur, Andrew B., Kirker, Andrew W., Albiani, David A., Young, Mei, Sarunic, Marinko V., Beg, Mirza Faisal

Journal:

Investigative Ophthalmology & Visual Science

Year:

2013

Language:

english

File:

PDF, 641 KB

english, 2013

35

Optic Nerve Head and Peripapillary Morphometrics in Myopic Glaucoma

Lee, Sieun, Han, Sherry X., Young, Mei, Beg, Mirza Faisal, Sarunic, Marinko V., Mackenzie, Paul J.

Journal:

Investigative Opthalmology & Visual Science

Year:

2014

Language:

english

File:

PDF, 1.40 MB

english, 2014

36

Cerebrospinal Fluid Proteins Predict Longitudinal Hippocampal Degeneration in Early-stage Dementia of the Alzheimer Type

Wang, Lei, Fagan, Anne M., Shah, Aarti R., Beg, Mirza Faisal, Csernansky, John G., Morris, John C., Holtzman, David M.

Journal:

Alzheimer Disease & Associated Disorders

Year:

2012

Language:

english

File:

PDF, 575 KB

english, 2012

37

Rapid radial optical coherence tomography image acquisition

Lebed, Evgeniy, Lee, Sieun, Sarunic, Marinko V., Beg, Mirza Faisal

Journal:

Journal of Biomedical Optics

Year:

2013

Language:

english

File:

PDF, 20.72 MB

english, 2013

38

Three-Class Differential Diagnosis among Alzheimer Disease, Frontotemporal Dementia, and Controls

Raamana, Pradeep Reddy, Rosen, Howard, Miller, Bruce, Weiner, Michael W., Wang, Lei, Beg, Mirza Faisal

Journal:

Frontiers in Neurology

Year:

2014

Language:

english

File:

PDF, 3.93 MB

english, 2014

39

The Sub-Classification of Amnestic Mild Cognitive Impairment Using MRI-Based Cortical Thickness Measures

Raamana, Pradeep Reddy, Wen, Wei, Kochan, Nicole A., Brodaty, Henry, Sachdev, Perminder S., Wang, Lei, Beg, Mirza Faisal

Journal:

Frontiers in Neurology

Year:

2014

Language:

english

File:

PDF, 2.18 MB

english, 2014

40

Morphological phenotyping of mouse hearts using optical coherence tomography

Cua, Michelle, Lin, Eric, Lee, Ling, Sheng, Xiaoye, Wong, Kevin S. K., Tibbits, Glen F., Beg, Mirza Faisal, Sarunic, Marinko V.

Journal:

Journal of Biomedical Optics

Year:

2014

Language:

english

File:

PDF, 4.63 MB

english, 2014

41

Construction and use of a zebrafish heart voltage and calcium optical mapping system, with integrated electrocardiogram and programmable electrical stimulation

Lin, Eric, Craig, Calvin, Lamothe, Marcel, Sarunic, Marinko V., Beg, Mirza Faisal, Tibbits, Glen F.

Journal:

AJP Regulatory Integrative and Comparative Physiology

Year:

2015

Language:

english

File:

PDF, 3.75 MB

english, 2015

42

Novel ThickNet features for the discrimination of amnestic MCI subtypes

Raamana, Pradeep Reddy, Wen, Wei, Kochan, Nicole A., Brodaty, Henry, Sachdev, Perminder S., Wang, Lei, Beg, Mirza Faisal

Journal:

NeuroImage: Clinical

Year:

2014

Language:

english

File:

PDF, 2.21 MB

english, 2014

43

Hippocampal subfield surface deformity in nonsemantic primary progressive aphasia

Christensen, Adam, Alpert, Kathryn, Rogalski, Emily, Cobia, Derin, Rao, Julia, Beg, Mirza Faisal, Weintraub, Sandra, Mesulam, M.-Marsel, Wang, Lei

Journal:

Alzheimer s & Dementia Diagnosis Assessment & Disease Monitoring

Year:

2015

Language:

english

File:

PDF, 1012 KB

english, 2015

44

Network-level analysis of PET metabolic features for detection of Alzheimer’s disease

Raamana, Pradeep Reddy, Alpert, Kathryn I., Popuri, Karteek, Wang, Lei, Beg, Mirza Faisal

Journal:

Alzheimer's & Dementia

Year:

2015

Language:

english

File:

PDF, 981 KB

english, 2015

45

Manually segmented template library for 8-year-old pediatric brain MRI data with 16 subcortical structures

Garg, Amanmeet, Wong, Darren, Popuri, Karteek, Poskitt, Kenneth J., Fitzpatrick, Kevin, Bjornson, Bruce, Grunau, Ruth E., Beg, Mirza Faisal

Journal:

Journal of Medical Imaging

Year:

2014

Language:

english

File:

PDF, 1.95 MB

english, 2014

46

DISSIMILARITY BASED EXTRACTION OF COVARIANCE LINKED NETWORK (DECLINE) FEATURES FOR EARLY DETECTION OF AD

Raamana, Pradeep Reddy, Wang, Lei, Beg, Mirza Faisal

Journal:

Alzheimer's & Dementia

Year:

2014

Language:

english

File:

PDF, 822 KB

english, 2014

47

DISSIMILARITY BASED EXTRACTION OF COVARIANCE LINKED NETWORK (DECLINE) FEATURES FOR EARLY DETECTION OF AD

Ramana, Pradeep Reddy, Wang, Lei, Beg, Mirza Faisal

Journal:

Alzheimer's & Dementia

Year:

2014

Language:

english

File:

PDF, 1.06 MB

english, 2014

48

Metric Distances between Hippocampal Shapes Indicate Different Rates of Change over Time in Nondemented and Demented Subjects

Ceyhan, Elvan, Faisal Beg, Mirza, Ceritoglu, Can, Wang, Lei, C. Morris, John, G. Csernansky, John, I. Miller, Michael, Tilak Ratnanather, J.

Journal:

Current Alzheimer Research

Year:

2012

Language:

english

File:

PDF, 248 KB

english, 2012

49

SPIE Proceedings [SPIE Medical Imaging - San Diego, CA (Saturday 17 February 2007)] Medical Imaging 2007: Physiology, Function, and Structure from Medical Images - Estimation of 3D myocardial motion from tagged MRI using LDDMM

Kotamraju, Vinay, Manduca, Armando, Hu, Xiaoping P., McVeigh, Elliot, Beg, Mirza Faisal

Year:

2007

Language:

english

File:

PDF, 484 KB

english, 2007

50

SPIE Proceedings [SPIE Medical Imaging - San Diego, CA (Saturday 17 February 2007)] Medical Imaging 2007: Image Processing - Consistent realignment of 3D diffusion tensor MRI eigenvectors

Beg, Mirza Faisal, Pluim, Josien P. W., Reinhardt, Joseph M., Dickie, Ryan, Golds, Gregory, Younes, Laurent

Year:

2007

Language:

english

File:

PDF, 1.40 MB

english, 2007