Anthony Sherbondy

[ Contact ]
450 Serra Mall
Room 490, Jordan Hall
Stanford, CA 94305


ts1235813 at gmail dot com

"Thinking is more interesting than knowing, but less interesting than looking." - J. W. von Goethe

  Curriculum Vita       Research       Publications      Software  

I am currently a post-doctoral fellow at IBM Research in Almaden. I am also a visiting scholar in Stanford University's Psychology Department. These joint positions enable me to conduct exciting research in both engineering and neuroscience.

Recently, I finished my Ph.D. thesis, "Measurement and visualization of white matter fascicles using magnetic resonance diffusion-weighted imaging fiber tractography", at Stanford University.  I was extremely fortunate to have been advised by two great mentors at Stanford: Sandy Napel (Radiology) and Brian Wandell (Psychology). Other professors that I owe a great deal for their mentorship and many hours spent working with me at Stanford include Pat Hanrahan (Computer Science) and Art Owen (Statistics)

My first research passion was the development of interactive scientific visualization and measurement tools that focused on enhancing experimental control and intuitive manipulation of data. A few years later, my second passion became using these tools to measure properties of the white matter in the brain.


My research interests in the brain are focused on measuring properties of the brain's white matter using diffusion-weighted MRI. My exploration in this area began as a project to develop visualization software (DTI-Query) that facilitated interactive exploration of hypotheses about connectivity using fiber tractography. After this work, I introduced two of my own algorithms for fiber tractography: Connectivity Tracking (ConTrack) and Fascicle Tracking (FascTrack).

Earlier Visualization Software Research

Mike Houston, Sandy Napel and I considered highly interactive painting approaches for segmentation of anatomy of interest for the investigation of cardiovascular disease in medical images. The strength of our approach relied on the creation of a fast non-linear diffusion based seeded region growing algorithm that shared resources with a volume rendering engine, both of which we wrote for the GPU.

I have also investigated the use of commodity interface devices and new image browsing techniques for browsing cutting planes of large computed tomography (CT) volumes. I collaborated on this work with Sandy Napel, Djamila Holmlund, Terry Winograd and Geoff Rubin.

As one of my first projects at Stanford, I combined various standard visualization techniques to understand their utility for enhancing radiologist performance when interacting with a proposed computer automated detection system for lung nodules within CT volumes. I was advised by Geoff Rubin and Sandy Napel during this work.

Refereed Journal Papers

Anthony J. Sherbondy, Robert F. Dougherty, Sandy Napel, and Brian Wandell, “Identifying the human optic radiation using diffusion imaging and fiber tractography,” Journal of Vision, In-press, 2008.

Anthony J. Sherbondy, Robert F. Dougherty, Michal Ben-Shachar, Sandy Napel, and Brian Wandell, “ConTrack: Finding the most likely pathways between brain regions using diffusion tractography.” Journal of Vision, 8(9):15, pp. 1-16, 2008.

Anthony Sherbondy, David Akers, Rachel Mackenzie, Robert Dougherty, and Brian Wandell, "Exploring Connectivity of the Brain's White Matter with Dynamic Queries." IEEE Transactions on Visualization and Computer Graphics, Volume 11, Issue 4 (July 2005) pp. 419-430.

Anthony J. Sherbondy, Djamila Holmlund, Geoffrey D. Rubin, Pamela K. Schraedley, Terry Winograd and Sandy Napel, “Alternative Input Devices for Efficient Navigation of Large CTA Studies,” Radiology 234(2):391-398, 2005.

Geoffrey D. Rubin, John K. Lyo, David S. Paik, Anthony J. Sherbondy, Lawrence C. Chow, Ann N. Leung, Robert Mindelzun, Pamela K. Schraedley-Desmond, Steven E. Zinck, David P. Naidich and Sandy Napel, "Pulmonary Nodules in MDCT Scans: Impact of Computer-aided Detection,” Radiology 234(1):274-273, 2005.

Rod D. Swift, Attila P. Kiraly, Anthony J. Sherbondy, et al., “Automatic Axis Generation for Virtual Bronchoscopic Assessment of Major Airway Obstructions,” Computerized Medical Imaging and Graphics, vol. 26, no. 2, pp. 103-118, March-April 2002.

Geoffrey McLennan, James P. Helferty, Eric A. Hoffman, Anthony J. Sherbondy, J. Scott Ferguson, and William E. Higgins, ``Virtual-Endoscopic Guidance of Bronchoscopy:  Phantom Studies,'' submitted 13 October 2000, accepted 2 February 2002, Amer. J. Respiratory & Critical Care Med., page A777, vol. 16, no. 5, April 2001.

Refereed Conference Proceedings

David Akers, Anthony Sherbondy, Rachel Mackenzie, Robert Dougherty, and Brian Wandell, "Exploration of the Brain's White Matter Pathways with Dynamic Queries." Proceedings of IEEE Visualization 2004, pp. 377-384.

Anthony Sherbondy, Mike Houston, and Sandy Napel, "Fast Volume Segmentation with Simultaneous Visualization Using Programmable Graphics Hardware," Proceedings of IEEE Visualization 2003, pp. 23-30 .

James P. Helferty, Anthony J. Sherbondy, et al., ``Image-Guided Endoscopy for Lung-Cancer Assessment,'' IEEE Int. Conf. Image Processing, vol. II, pp. 307-310, 7-10 October 2001.

J.P. Helferty, A.J. Sherbondy, et al., “Experiments in Virtual-Endoscopy Guidance of Bronchoscopy,” SPIE Medical Imaging 2001: Physiology and Function from Multidimensional Images, A. Clough and C.T. Chen, eds., SPIE Proceedings vol. 4321, 2001.

Anthony J. Sherbondy, Atilla P. Kiraly, et al., “Virtual Bronchoscopic Approach for Combining 3D CT and Endoscopic Video,” SPIE Medical Imaging 2000: Physiology and Function from Multidimensional Images, A. Clough and C.T. Chen, eds., SPIE Proceedings vol. 3978, 2000.

Conference Abstracts and Posters

Sherbondy, A., Dougherty, R., & Wandell, B. “Identification of optic radiation in-vivo using diffusion tensor imaging and fiber tractography.” Vision Sciences Society 2008.

Anthony J. Sherbondy, Robert F. Dougherty, Michal Ben-Shachar, Sing-Hang Cheung, Sandy Napel and Brian A. Wandell. “Identifying the most likely white matter pathways between two brain regions,” Society for Neuroscience 2007, San Diego.

Anthony J. Sherbondy, Silvia S. Blemker, Edith M. Arnold, Sandy Napel, Scott L. Delp, Gary E. Gold. “Measuring human gastrocnemius pennation angle utlizing most likely pathway distributions in diffusion tensor imaging”. 15th Annual Meeting ISMRM, Berlin, Germany, 2007.

Sherbondy AJ, Akers DL, Dougherty RF, Ben-Shachar M, Napel S, Wandell BA, “MetroTrac: A Metropolis Algorithm for Probabilistic Tractography”, poster, Human Brain Mapping, Florence, June 2006.

Sherbondy AJ, Houston M, Napel S, "Interactively Guided Volumetric Segmentation Using Programmable Graphics Hardware," presented at the Radiological Society of North America 89th Scientific Sessions, November 2003.

Rubin GD, Naidich DP, Sherbondy AJ, Lyo JP, Napel S, "Inadequacy of Lung Nodule Reference Standard Based Upon Standard Methods of Expert Consensus Review Using Cine-paging of Transverse Thin-section MDCT Lung Scans," presented at the Radiological Society of North America 89th Scientific Sessions, November 2003.

Rubin GD, Lyo JP, Paik DS, Sherbondy AJ, Naidich DP, Napel S, "Impact of Computer-assisted Detection (CAD) Algorithm vs a Second Radiologist on Reader Sensitivity for Detecting Pulmonary Nodules in MDCT Scan," presented at theRadiological Society of North America 89th Scientific Sessions, November 2003.

William E. Higgins, Atilla P. Kiraly, et al., “Use Of Integrated Virtual-Bronchoscopic Analysis During Live Bronchoscopy,” Radiology, vol. 221 (P), pg. 719, November 2001.

W.E. Higgins, A.J. Sherbondy, et al., “Virtual Bronchoscopy for 3D CT Assessment and Endoscopic Guidance,” Radiology, vol. 217(P), page 706, Nov. 2000. 

ConTrack - Software for identifying the most likely pathways of white matter between regions in the brain using diffusion imaging fiber tractography

DTIQuery - Software for exploring connectivity in human brain white matter using diffusion tensor imaging, tractography and dynamic query techniques

VISTASOFT - Tools for vision and imaging science. I have made several contributions to this toolkit and most notably to the DTI analysis tools.

Stanford University Radiology Framework (SURF) - Framework for rapid development of visualization applications for clinical study.

Fiber Shape Analysis - Software for performing clustering and shape analysis on potential neural pathways retrieved from tractography on diffusion tensor imaging data. This software was a class project for a course I took in applied multivariate analysis taught by John Kettenring. I won the book "An R and S-Plus Companion to Multivariate Analysis" by Everitt for this project.

Virtual Navigation Bronchoscopy Suite (VN) - Used for planning bronchoscopic procedures and guidance during bronchoscopy. Focused on a unique method for fusing acquired bronchoscopy video with previously acquired computed tomography images.