UNIVERSITY OF PENNSYLVANIA - SCHOOL OF MEDICINE

Curriculum Vitae
Date: May 3, 2006



Name:    Jayaram K. Udupa


Office Address:    Medical Image Processing Group
Department of Radiology - University of Pennsylvania
Blockley Hall - Fourth Floor
423 Guardian Drive Philadelphia, PA 19104-6021

Education:

1967-72     B. Engg.    Electronics and Communications, Mysore University, Mysore India.
1972-76     Ph.D.        Computer Science, Indian Institute of Science, Bangalore, India.

Faculty Appointments:

1976-78    Scientific Officer, Department of Electrical Engineering, Indian Institute of Science, Bangalore, India.

1978-81    Research Assistant Professor, Medical Image Processing Group, Department of Computer Science, State University of New York at Buffalo.

1981-83    Adjunct Assistant Professor, Medical Image Processing Group, Department of Radiology University of Pennsylvania.

1983-91    Adjunct Associate Professor, Medical Image Processing Group, Department of Radiology University of Pennsylvania.

1991-92    Research Associate Professor, Medical Image Processing Group, Department of Radiology University of Pennsylvania.

1992-94    Associate Professor, Department of Radiology, University of Pennsylvania.

1994-    Professor of Radiologic Science, University of Pennsylvania.

 
Administrative Appointments:

1982-91    Director, Medical Image Processing Group, Department of Radiology, University of Pennsylvania.

1991-    Chief, Medical Imaging Section, Department of Radiology, University of Pennsylvania.

Awards, Honors:

1974-76    Research Fellowship, Council of Scientific and Industrial Research, India.

1976-77    Alumni Gold Medal for best Ph.D. research during 1976-77, Indian Institute of Science, Bangalore, India.

1993    3DVIEWNIX (see under Transfer of Technology) considered one of the top 10 visualization software systems of 1993 by the journal IEEE Computer Graphics and Applications.

1997    Honorable Mention, Scientific Exhibit, “Automatic Cluster-free Volume Rendering for MR Angiography Using Fuzzy Connectedness,” J.K. Udupa, D. Odhner, J. Tian, G. Holland and L. Axel, Society of Photo-Optical Instrumentation Engineers Medical Imaging Conference, Newport Beach, California.

1998    Honorable Mention, Scientific Exhibit, “3D Architecture of the Rear Foot from MRI Data: Technical Validation and Clinical Description,” E. Stindel, J.K. Udupa and B.E. Hirsch, Society of Photo-Optical Instrumentation Engineers Medical Imaging Conference, San Diego, California.

1998    Certificate of Merit, Scientific Exhibit, “On Standardizing the MR Image Intensity Scale,” L.G. Nyul, J.K. Udupa, Radiological Society of North America, 84th Scientific Assembly and Annual Meeting, Chicago, Illinois.

1999    Cum Laude, Scientific Exhibit, “3D Analysis of the Peritalar Complex Using MR Imaging in Live Patients,” E. Stindel, J.K. Udupa, B.E. Hirsch and D. Odhner, Society of Photo-Optical Instrumentation Engineers Medical Imaging Conference, San Diego, California.

1999    Certificate of Merit, Scientific Exhibit, “An Order Magnitude Faster Surface Rendering of Medical Object in Software on a PC Than by Using a Dedicated Rendering Hardware,” Excellence in Design, Radiological Society of North America, 85th Scientific Assembly and Annual Meeting, Chicago, Illinois.

2000    Honorable Mention, Scientific Exhibit, “Standardizing MR Intensity Scale: Making MR Intensities Have Tissue Specific Meaning,” L.G. Nyul and J.K. Udupa, SPIE Medical Imaging (Image Display) 2000, San Diego, California.

2000    Honorable Mention, Scientific Exhibit, “Multiprotocol MR Image Segmentation in Multiple Sclerosis: Experience With Over 1000 Studies,” J.K. Udupa, R.I. Grossman, L.G. Nyul, Y. Ge and L. Wei, SPIE Medical Imaging (Image Processing), San Diego, California.
2000    Certificate of Merit, Educational Exhibit, “Three-Dimensional Rendering in Radiology: Some Common Misconceptions,” J.K. Udupa, 86th Scientific Assembly and Annual Meeting, Radiological Society of North America, Chicago, Illinois.

2001    Fellow, The American Institute of Medical and Biological Engineering.

2001    Honorable Mention, Scientific Exhibit, “Software Package for Separate Visualization of Arteries and Veins in CE-MRA Images,” T. Lei, J. K. Udupa, D. Odhner and P.K. Saha, SPIE Medical Imaging (Image Display), San Diego, California.

2001    Cum Laude, Education Exhibit, “A Framework for the Evaluation of Image Segmentation Algorithms,” J.K. Udupa, 87th Scientific Assembly and annual Meeting, Radiological Society of North America, Chicago, Illinois.

2002    Honorable Mention, Scientific Exhibit, “Protocol-Independent Brain MRI Segmentation Method,” L.G. Nyul and J. K. Udupa, SPIE International Symposium on Medical Imaging (Image Processing), San Diego, California.

2002    Honorable Mention, Scientific Exhibit, “Vectorial Scale-Based Fuzzy Connectedness for Segmenting Anatomical Structures in Visible Human Color Data Sets,” Y. Zhuge, J.K. Udupa and P.K. Saha, SPIE International Symposium on Medical Imaging (Image Processing), San Diego, California.

2002    Certificate of Merit, Scientific Exhibit, “A Protocol-Independent Brain MRI Segmentation Method,” L.G. Nyul, J.K. Udupa, 88th Scientific Assembly and Annual Meeting of the Radiological Society of North America, Chicago, Illinois.

2003    Laude, Scientific Exhibit, “Integrated Approach for the Removal of Intensity Inhomogeneity and Thermal Noise in SPAMM-MRI Using Scale-Based Fuzzy Connectedness and Multiple Nonlinear Adaptive Filters,” A. Montillo, J.K. Udupa, L. Axel and D.N. Metaxas, SPIE International Symposium on Medical Imaging, San Diego, California.

2005    Robert N. Hensinger Scientific E-Poster award for “Correction of Tarsal Deformities in Congenital Clubfoot with Ponseti Treatment: When and How Does it Occur – A 3D MRI Analysis, 2005 Annual Meeting of the Podiatric Orthopedic Society of North America, Orlando, Florida.

Memberships in Professional and Scientific Societies:

Fellow, The American Institute of Medical and Biological Engineering
Senior Member, Institute of Electrical and Electronic Engineers
Member, Association for Computing Machinery
Member, Radiological Society of North America
Member, IEEE Engineering in Medicine and Biology Society
Member, American Association of Physicists in Medicine
Member, Society of Photo Optical Instrumentation Engineers

 
Editorial Positions:

1988-    Associate Editor, Computerized Medical Imaging and Graphics
1995-    Associate Editor, IEEE Transactions on Biomedical Engineering
2001-    Area Editor, Computer Vision and Image Understanding
2004-    Associate Editor, IEEE Transactions on Information Technology in Biomedicine
 
History of Award of Grants:

Co-PI    7/85 to 6/88    Computer Resource for Medical 3D Display and Analysis - NIH, direct costs $1.6 million.
Co-PI    7/85 to 6/88    Reconstruction and Display in Tomographic Radiology - NIH, direct costs $1.2 million.
Co-PI    12/87 to 11/89    Reconstruction and Display in Tomographic Radiology - NIH, direct costs $620,000.
Co-PI    8/89 to 7/90    Computerized 3D Analysis of Midtarsal Joint Kinematics, American Association of Colleges of Podiatric Medicine, $19,900.
Co-PI    7/91 to 6/92    Kinematics of Joints of the Foot, American Association of Colleges of Podiatric Medicine - direct costs $35,100.
Co-PI    7/92 to 6/93    Kinematics of Joints of the Foot, American Association of Colleges of Podiatric Medicine - direct costs $33,800.
PI    4/1/91 to 10/31/93    Surfaces, Objects and Their Borders in Multidimensional Images: Theory and Algorithms, NSF - total costs $207,000.
PI    7/1/89 to 6/30/94    UNIX-Based Software for 3D Display and Analysis - NIH, direct costs $1.2 million.
PI    4/92 to 6/95    Volume Rendering and Manipulation in Tomographic Radiology NIH - direct costs $416,828.
PI    9/97 to 8/00    Mammographic Lesion and Density Detection and Classification, Department of Army - total costs, $299,548.
PI    12/97 to 11/99    Object Definition in Tomographic Radiology - NIH, direct costs $366,941.
PI    4/98 to 6/99    Three-Dimensional MR Angiographic Visualization Using Fuzzy Connectedness Vessel Definition - Sponsored Research - EPIX Medicals Inc., total costs, $140,118.
PI    7/99 to 6/00    Three-Dimensional MR Angiographic Visualization Using Fuzzy Connectedness Vessel Definition - Sponsored Research - EPIX, Medicals Inc., total costs, $140,118.
PI    8/99 to 12/99    Supplement to Object Definition in Tomographic Radiology, NIH, direct costs $50,000.
PI    4/00 to 3/03    Biomechanics of Foot/Ankle Injuries using 3D Imaging - NIH, direct costs $634,500.
PI    7/00 to 6/01    Three-Dimensional MR Angiographic Visualization Using Fuzzy Connectedness Vessel Definition - Sponsored Research, EPIX Medicals, Inc., total cost $140,000.
PI    1/02 to 12/05    Object Definition in Tomographic Radiology, NIH, direct costs $855,000.
PI    10/02 to 9/03    Incorporation of Active Appearance Model-Based Segmentation Algorithms Into ITK, NLM, total costs $100,000.
PI    09/04 to 06/08    Continued Development and Porting of 3DVIEWNIX Software, NIBIB, total direct costs $1,055,511.

Transfer of Technology and Dissemination:

( i)     The first to transfer 3D visualization technology to the medical imaging industry. Implemented an early version of the software package DISPLAY82 (developed with a major role played by me at MIPG) on an Independent Physician Display Console (IPDC) of the General Electric (GE) CT Scanners in 1979 and in 1980. This was the earliest attempt to bring to use the 3D visualization technology via medical imaging scanner manufacturers. Subsequently, played a major role in developing software packages called 3D82, 3D83 and 3D98 all designed to run on the GE IPDC. This had a major impact on the industrialization of medical 3D visualization.

In 1984 almost all scanner manufacturers and a few other independent vendors entered this field. Since then the field has seen tremendous growth. Subsequently assisted several vendors in their early development of the 3D visualization technology. Some major examples are: Technicare, Thomson CGR, Multiplanar Diagnostic Imaging, and Virtual Imaging.

(ii)   Widely disseminated 3D software and techniques worldwide in the academic and research world. A major example is the development of early 3D research activity at the Mayo Clinic. Implemented an early version of DISPLAY82 at the Mayo Clinic (Biodynamics Research Unit) in 1980 and revised again in 1981. This initial effort, which triggered widespread use of 3D in Mayo for research, led to the development of ANALYZE, a package Mayo Clinic has subsequently developed and commercialized.

Designed and directed the development of a major software system, called 3DVIEWNIX, that is data-, machine-, and application-independent, for the visualization and analysis of multidimensional multimodality data. This system with about 55 person-years of work has now been installed at over 188 sites worldwide. I believe that 3DVIEWNIX will have a major impact on multidimensional data visualization and analysis.

Academic Committees at the University of Pennsylvania:

1991-    Member, Graduate Group, Bioengineering Department
 
Lectures Delivered Since 1986 Outside the Department of Radiology, University of Pennsylvania (Those marked * are by invitation):

*February 5, 1986    "Computerized surgical planning: Current capabilities and medical needs," Applications of Optical Instrumentation in Medicine XIV and PACSIV, Newport Beach, California.

April 3, 1986    "3D98: A turnkey system for the 3D display and analysis of medical objects in CT data," International Workshop on Physics and Engineering in Computerized Multidimensional Imaging and Processing, Newport Beach, California.

*May 13, 1986    "Simulation of surgical procedures using computer graphics," Seventh Annual Conference and Exposition of the National Computer Graphics Association, Anaheim, California.

*November 8, 1986    "Quantified three-dimensional imaging techniques for biomedical analysis of skeletal joints," IEEE Engineering in Medicine and Biology Society 8th Annual Conference, Fort Worth, Texas.

*February 19, 1987    "Algorithms and software design in the 3D98 software package," Technicare Corporation, Solon, Ohio.

*March 23, 1987    "3D imaging in medicine," Eighth Annual Conference and Exposition of the National Computer Graphics Association, Civic Center, Philadelphia, Pennsylvania.

*March 25, 1987    "How to evaluate approaches to 3D display in medicine," Eighth Annual Conference and Exposition of the National Computer Graphics Association, Civic Center, Philadelphia, Pennsylvania.

 July 4, 1987    "A unified theory of objects and their boundaries in multidimensional digital images," Computer Assisted Radiology, CAR’87, Berlin, West Germany.

 July 23, 1987    "Boundary tracking in multidimensions and some discrete topological problems," SIAM Conference on Applied Geometry, Albany, New York.

*September 20, 1987    "3D imaging and its medical applications," Symposium on Ultrasound Imaging, American College, Bryn Mawr, Pennsylvania, sponsored by Drexel University.

*October 16, 1987    "Display in three dimensions using shaded graphics," New England Chapter Society of Nuclear Medicine, 20th Annual Meeting, Newport, Rhode Island.

*December 12, 1987    "Future trends in 3D imaging: Software aspects," 3D Imaging in Medicine, University of Pennsylvania, Philadelphia, Pennsylvania.

*March 21, 1988    "Computer graphics in surgical planning," 9th Annual Conference and Exposition of the National Computer Graphics Association, Anaheim Convention Center, Anaheim, California.
*March 24, 1988    "3D imaging in medicine: Pitfalls and possible remedies," 9th Annual Conference and Exposition of the National Computer Graphics Association, Anaheim Convention Center, Anaheim, California.

*May 9, 1988    "3D imaging in medicine: Some practical aspects," Symposium on Visualization in Scientific Computing, Princeton University, Princeton, New Jersey.

*June 16, 1988    "3D imaging in medicine: Current status and future trends," The First Scientific meeting on Digital Image Management and Communication, Thomas Jefferson Medical College, Philadelphia, Pennsylvania.

*October 27, 1988    "Interactive surgical planning using a high-performance workstation," First International Congress on Eidomatic of the Craniomaxillofacial District, Milano, Italy.

*October 28, 1988    "Surgical planning using computers," First International Congress on Eidomatic of the Craniomaxillofacial District, Piacenza, Italy.

*November 13, 1988    "3D Imaging in biomedicine: The MIPG perspective," Annual Meeting of the Society for Neurosciences, November 13-18, Toronto, Canada.

*April 19. 1989    "The MIPG perspective on 3D viewing in biomedicine," 10th Annual Conference and Exposition of the National Computer Graphics Association, Philadelphia, Pennsylvania.

*May 17, 1989    "Objects and boundaries in multidimensional discrete spaces," Department of Mathematics, Brigham Young University, Provo, Utah.

*May 20, 1989    "Recent developments and on-going projects in 3D imaging at MIPG," Department of Computer Science, Brigham Young University, Provo, Utah.

*June 21, 1989    "Display of medical objects and their interactive manipulation," Graphics Interface ’89, London Ontario, Canada.

*October 4, 1989    "High-speed display and manipulation of medical objects without specialized hardware," Electronic Imaging, International Electronic Imaging Exposition and Conference, Boston, Massachusetts.

*November 16, 1989    "Computer aspects of 3D imaging in medicine: A tutorial," 3D imaging in medicine, Continuing Medical Education Course (sponsored by the Hospital of the University of Pennsylvania, Department of Radiology), Coronado, California.

*November 17, 1989    "Surface versus volume rendering: A comparative assessment," 3D imaging in medicine, Continuing Medical Education Course (sponsored by the Hospital of the University of Pennsylvania, Department of Radiology), Coronado, California.

*January 17, 1990    "Boundaries in n-dimensional discrete spaces," American Mathematical Society Annual Meeting, Louisville, Kentucky.

*January 17, 1990    "Boundaries in n-dimensional spaces: Medical applications and some open problems," American Mathematical Society Annual Meeting, Louisville, Kentucky.

*April 5, 1990    "Boundaries in n-dimensional digital images: Some theoretical aspects and algorithms," Department of Mathematics, City University of New York, New York, New York.

*May 22, 1990    "Visualization of biomedical data: Principles and algorithms," Visualization in Biomedical Computing, Atlanta, Georgia.

 May 23, 1990    "Surface versus volume rendering: A comparative assessment," Visualization in Biomedical Computing, Atlanta, Georgia.

*May 23, 1990    "Surface versus volume rendering: position statement," Visualization in Biomedical Computing, Atlanta, Georgia.

 May 24, 1990    "Kinematics of the joints of the foot via three-dimensional magnetic resonance imaging," Visualization in Biomedical Computing, Atlanta, Georgia.

 May 24, 1990    "A PC-based imaging system for biomedical data," Visualization in Biomedical Computing, Atlanta, Georgia.

 May 25, 1990    "High-speed display and manipulation of biomedical objects without specialized hardware," Visualization in Biomedical Computing, Atlanta, Georgia.

 June 15, 1990    "A comparison of volume and surface rendering methods," The 10th Conference on Computer Applications in Radiology, SCAR90, Anaheim, California.

*July 17, 1990    "Surface rendering in medical 3D imaging," NIH DIRB Consensus Building Workshop on 3D Display and Analysis, Bethesda, Maryland.

*July 18, 1990    "Application-, approach-, data-, and machine-independent software development for medical 3D imaging," NIH DIRB Consensus Building Workshop on 3D Display and Analysis, Bethesda, Maryland.

*November 4, 1990    “Surface and volume rendering: A comparison," 12th Annual International Conference IEEE Engineering in Medicine and Biology Society, Philadelphia, Pennsylvania.

*November 14, 1990    "Three-dimensional imaging and its medical applications," Image Processing Center, Drexel University, Philadelphia, Pennsylvania.

*April 10, 1991    "3DVIEWNIX: A machine-, data-, and application-independent software environment for the visualization and analysis of multidimensional biomedical structures," Scanning 91, Atlantic City, New Jersey.

*August 28, 1991    "Three-dimensional imaging at MIPG: Some recent developments," Department of Radiology, Emory University, Atlanta, Georgia.

*August 29, 1991    "High-speed volume rendering of surfaces," Graphics, Visualization and Usability Center, College of Computing, Georgia Institute of Technology, Atlanta, Georgia.

*September 18, 1991    "High-speed volume rendering and analysis of surfaces," Bioengineering Center, University of Washington, Seattle, Washington.

 February 23, 1992    "High-speed volume rendering," SPIE Conference Medical Imaging VI, Newport Beach, California.

 February 23, 1992    "3DVIEWNIX: A machine-, data-, and application-independent software environment for the visualization and analysis of multidimensional images," SPIE Conference Medical Imaging VI, Newport Beach, California.

 February 26, 1992    "Multidimensional data format for biomedical visualization: A generalization of the ACR-NEMA standards," SPIE Conference Medical Imaging VI, Newport Beach, California.

*February 27, 1992    "Volume rendering," Department of Computer Science, Brigham Young University, Provo, Utah.

*February 28, 1992    "Current research directions of MIPG," Department of Computer Science, Brigham Young University, Provo, Utah.

*March 10, 1992    "Multidimensional image visualization, data representation and analysis," Electronic Imaging of the Human Body. A working group sponsored by Armstrong Laboratory Human Engineering Division, CSERIAC, Wright Patterson AFB, Dayton, Ohio.

*March 17, 1992    "Biomedical visualization: A tutorial, Part I," Department of Electrical and Computer Engineering, University of Sao Paulo, Brazil.

*March 18, 1992    "Biomedical visualization: A tutorial, Part II," Department of Electrical and Computer Engineering, University of Sao Paulo, Brazil.

*March 19, 1992    "Recent developments in multidimensional image visualization and analysis," Department of Electrical and Computer Engineering, University of Sao Paulo, Brazil.

*April 1, 1992    "3DVIEWNIX: A machine independent software system for the visualization and analysis of multidimensional biomedical image data," SCANNING’92, Atlantic City, New Jersey.
 October 14, 1992    "Boundary detection via dynamic programming," Visualization in Biomedical Computing, VBC’92, Chapel Hill, North Carolina.

 October 16, 1992    "Joint kinematics via three-dimensional MR imaging," Visualization in Biomedical Computing, VBC’92, Chapel Hill, North Carolina.

*October 30, 1992    "Frontiers of computers in biomedical visualization," 14th IEEE Engineering in Medicine and Biology Society Conference, Paris, France.

 October 30, 1992    "3DVIEWNIX: A machine-independent software system for the visualization and analysis of multidimensional biomedical images," 14th IEEE Engineering in Medicine and Biology Society Conference, Paris, France.

 October 30, 1992    "Kinematics of joints via three-dimensional MR imaging," 14th IEEE Engineering in Medicine and Biology Conference, Paris, France.

*December 7, 1992    "Volume visualization: Some recent developments," Seminar sponsored by the Department of Electronical Engineering and Bioengineering, University of Pittsburgh, Pennsylvania.

 February 14, 1993    "3DVIEWNIX: An open transportable software system for the visualization and analysis of multidimensional, multimodality, multiparametric images," Medical Imaging 1993 SPIE Conference, Newport Beach, California.

 February 14, 1993    "Analysis of kinematics of joints via 3D imaging," Medical Imaging 1993 SPIE Conference, New port Beach, California.

*March 2, 1993    "3DVIEWNIX: An open transportable software system for 3D imaging," NSF Planning Workshop on Computer Assisted Surgery, Washington, D.C.

*June 23, 1993    "Some recent developments in multidimensional data visualization and analysis at  Mathematics and Computer Science in Medicine, University of Hamburg, Hamburg, Germany.

*June 26, 1993    "Imaging transforms for 3D biomedical imaging: An open, transportable system (3DVIEWNIX) approach," Computer Assisted Radiology, CAR’93, Berlin, Germany.

*August 2, 1993    "3D imaging systems,” American Association of Physicists in Medicine, Summer School, University of Virginia, Charlottesville, Virginia.

*August 2, 1993    "3D visualization of images," American Association of Physicists in Medicine, Summer School, University of Virginia, Charlottesville, Virginia.

*September 17, 1993    "3DVIEWNIX: A transportable, open system for 3D imaging," Visible Embryo Project Meeting, National Museum of Health and Medicine, Washington, D.C.

*November 23, 1993    "Portability issues, sharing code, and images in multidimensional image analysis," A workshop sponsored by the National Library of Medicine Extramural Programs, Bethesda, Maryland.

 November 28, 1993    "3DVIEWNIX: A transportable, open software system for multimodality 3D imaging," RSNA 79th Scientific Meeting and Annual Assembly, Chicago, Illinois.

*December 7, 1993    "Volume visualization and analysis: Some recent developments," CAIP Center for Computer Aids for Industrial Productivity and Department of Electrical and Computer Engineering Joint Seminar, Rutgers University, Piscataway, New Jersey.

*January 29, 1994    "3DVIEWNIX: A machine-independent software system for the visualization and analysis of multidimensional, multimodal images," Medicine Meets Virtual Reality II, San Diego, California.

 February 13, 1994    "Shape-based interpolation of multidimensional grey-level images." SPIE Medical Imaging, 1994, Newport Beach, California.

 February 13, 1994    "3DVIEWNIX: An open, transportable, multidimensional, multimodality, multiparametric imaging software system," SPIE Medical Imaging 1994, Newport Beach, California.

*February 17, 1994    "Volume visualization: Some recent developments," Department of Computer Science Seminar, Brigham Young University, Provo, Utah.

*February 17, 1994    "Ongoing research in volume visualization at MIPG," Department of Computer Science, Brigham Young University, Provo, Utah.

*March 22, 1994    "MIPG research activities and their relevance to the goals of ICMIT," International Consortium on Medical Imaging Technology, MIT, Cambridge, Massachusetts.

*July 4, 1994    "3D Imaging: A Tutorial I," IEEE Summer School on Medical Imaging, Ile Berder, France.

*July 5, 1994    "3D Imaging: A Tutorial II," IEEE Summer School on Medical Imaging, Ile Berder, France.

*July 21, 1994    "Recent Developments in 3D Imaging," Joszef Attila University, Szeged, Hungary.

*August 15, 1994    "3D Imaging I," Pre Congress Course on Medical Image Processing, Sao Joao Del Rei, Brazil.

*August 16, 1994    "3D Imaging II," Pre Congress Course on Medical Image Processing, Sao Joao Del Rei, Brazil.

*August 17, 1994    "3D Imaging III," Pre Congress Course on Medical Image Processing, Sao Joao Del Rei, Brazil.

*August 18, 1994    "3D Imaging IV," Pre Congress Course on Medical Image Processing, Sao Joao Del Rei, Brazil.

*August 18, 1994    "3D Imaging V," Pre Congress Course on Medical Image Processing, Sao Joao Del Rei, Brazil.

*August 26, 1994    "3DVIEWNIX: An open, transportable multidimensional, multimodality, multiparametric imaging software system," World Congress on Medical Physics and Biomedical Engineering, Rio De Janeiro, Brazil.

 October 4, 1994    "3D imaging in biomedical computing: Principles, algorithms and systems," Visualization in Biomedical Computing VBC'94, Rochester, Minnesota.

 October 5, 1994    "Fuzzy objects and their boundaries," Visualization in Biomedical Computing VBC'94, Rochester, Minnesota.

*December 7, 1994    "Advances in 3D medical image processing," Plenary Lecture, 8th International Conference on Biomedical Engineering, Singapore.

*February 16, 1995    "Visualizing multidimensional images," 1995 AAAS Annual Meeting, Symposium on Fundamentals of Imaging Science, Atlanta, Georgia.

  February 26, 1995    "Fuzzy connectedness and object definition." SPIE Medical Imaging 1995, San Diego, California.

  February 26, 1995    "Shell manipulation: interactive alteration of multiple material fuzzy structures," SPIE Medical Imaging 1995, San Diego, California.

*April 6, 1995    "Visualizing 3D images," Seminar, Department of Biomedical Engineering- The Cleveland Clinic Foundation, Cleveland, Ohio.

*April 7, 1995    "In vivo 3D kinematic analysis of joints via MRI," Seminar, Department of Biomedical Engineering - The Cleveland Clinic Foundation, Cleveland, Ohio.

*April 28, 1995    "Detection and quantitation of MS lesions via fuzzy connectedness in MR images," A consensus building meeting held at University of British Columbia - Vancouver. Sponsored by Berlex Laboratories, Richmond, California.

*August 25, 1995    "Visualization and analysis of multidimensional image information: A current perspective," Theory Institute on Large-Scale Medical Imaging, Argonne National Laboratories, Chicago.

*November 6, 1995    "Computer-assisted lesion quantification in multiple sclerosis," in workshop entitled "Evaluation of Multiple Sclerosis Lesion Load: Comparison of Multiple Image Processing Techniques, Montreal Neurological Institute, Montreal, Canada.
*December 5, 1995    "Fuzzy connectedness: Principles and algorithms for image segmentation," Division of Engineering, Brown University, Providence, Rhode Island.

*December 5, 1995    "Detection of MS lesions via MR imagery," Department of Radiology, Brown University, Providence, Rhode Island.

  February 12, 1996    "Detection and quantification of MS lesions using fuzzy topological principles." SPIE Medical Imaging 1996, Newport Beach, California.

*June 10, 1996    "Clinical applications of 3D imaging," Norwegian Institute of Technology Trondheim, Norway.

*June 10, 1996    "Image segmentation: The use of fuzzy topology and user steering," Norwegian Institute of Technology, Trondheim, Norway.

*October 30, 1996    "Visualization and segmentation of multidimensional images," in "Intelligent Image Analysis," a workshop at the 1996 IEEE Engineering in Medicine and Biology Society Conference, Amsterdam, The Netherlands.

*November 14, 1996    "Digital object definition in 3D imaging," 6th Digital Geometry for Computer Imagery Workshop, Lyon, France.

*December 17, 1996        "Some recent medical applications of three-dimensional imaging," Heart Institute (INCOR), University of Sao Paulo, Brazil.

*December 19, 1996        "Object definition in images," University of Campinas, Campinas, Brazil.

*January 16, 1997        "Quantitation of MS lesions via MR imagery: Pitfalls," Workshop on the Role of Magnetic Resonance Techniques in Understanding and Managing Multiple Sclerosis, Oxford, UK.

*February 24, 1997        "3D Imaging and its applications: Where do we stand?" SPIE Medical Imaging - Workshop, Newport Beach, California.

  February 25, 1997        "Three-dimensional MR angiography using fuzzy connectedness." SPIE Medical Imaging, Newport Beach, California.

  February 26, 1997        "A system for the comprehensive analysis of multiple sclerosis lesion load based on multiprotocol MR imagery," SPIE Medical Imaging, Newport Beach, California.

  February 26, 1997        "Segmentation of 3D objects using live wire," SPIE Medical Imaging, Newport Beach, California.

*March 26, 1997        "Practical Image Segmentation," Siemens Medical Systems, Princeton, New Jersey.

*May 1, 1997        "Vessel Segmentation in MRA Using Fuzzy Connectedness," EPIX Medical, Inc., Cambridge, Massachusetts.
*June 20, 1997    "A Pentium PC-Based Craniofacial 3D Imaging System," International Congress on Cranial and Facial Bone Distraction Processes, Paris, France.

*October 29, 1997        "In vivo kinematic analysis of the joints of the foot via MRI," Human Motion Analysis Workshop, IEEE EMBS Conference, Chicago, Illinois.

*December 1, 1997        "3D imaging in medicine: A current perspective," Category I Credit, Radiological Society of North America, 83rd Annual Meeting, Chicago, Illinois.

*February 13, 1998    "Kinematic analysis of joints via MRI," Podiatric Research Society, Annual Meeting, Orlando, Florida.

*February 21, 1998    "3D imaging for medical applications," a whole day tutorial, SPIE Medical Imaging, 1998, San Diego, California.

  February 22, 1998    "Fuzzy connected object rendering," SPIE Medical Imaging, 1998, San  Diego, California.

*May 7, 1998    "3D imaging for surgery planning: An overview," First Symposium of the Indian Association of Computer-Assisted Surgery, Chennai.

*May 8, 1998    "Analysis of joint kinematics for surgery planning," First Symposium of the Indian Association of Computer-Assisted Surgery, Chennai.

*May 8, 1998    "3DVIEWNIX: A portable software system for surgery planning," First Symposium of the Indian Association of Computer-Assisted Surgery, Chennai.

*May 8, 1998    "3D imaging systems for surgery planning," First Symposium of the Indian Association of Computer-Assisted Surgery, Chennai.

*May 9, 1998    "A system for craniomaxillofacial surgery planning," First Symposium of the Indian Association of Computer-Assisted Surgery, Chennai.

*October 12, 1998    "Joint motion parameters from 3D imaging data," Biomedical Engineering Society 1998 Annual Meeting, Cleveland, Ohio.

*October 22, 1998    "3D imaging: Where do we stand?" Conference on Multispectral Signal Processing. Huazhang University of Science and Technology, Wuhan, China.

 December 2, 1998    "A method for standardizing the MR image intensity scale," 84th Scientific Assembly and Annual Meeting of the Radiological Society of North America, Chicago, Illinois.

*January 18, 1999    "3D imaging with 3DVIEWNIX," Multidimensional Imaging, Inc., Newport Beach, California.

  February 23, 1999    "Fuzzy connected object definition in images with respect to co-objects," SPIE Medical Imaging, San Diego, California.

*February 23, 1999    "User-assisted hard and fuzzy segmentation of imagery," SPIE Medical Imaging, Workshop on Segmentation of Medical Images, San Diego, California.

*April 9, 1999    "Kinematic analysis of joints via MR imaging," Drexel University, Philadelphia, Pennsylvania.

*April 16, 1999    "User-assisted hard and fuzzy image segmentation: Some recent developments and their medical applications," Distinguished lecture, Department of Bioengineering, University of Toledo, Toledo, Ohio.

*May 24, 1999    "Artery vein separation in MRA contrast enhanced with MS-325," Special symposium organized by EPIX Medicals, Inc., at the ISMRM meeting in Philadelphia, Pennsylvania.

*August 8, 1999    "3D Kinematic Analysis via MRI," 17th Annual Meeting of the International Society of Biomechanics, Calgary, Canada.

*September 15, 1999    "3D MRA Visualization and Artery/Vein Separation Using Bloodpool Contrast Agent MS325," Contrast Media Research CMR'99, Woodstock, Vermont.

*November 1, 1999    "User-Assisted Hard and Fuzzy Image Segmentation Paradigms." National Library of Medicine, SRT Consortium Meeting, Bethesda, Maryland.

*December 8, 1999    "Some Discrete Problems in Practical Image Segmentation and Visualization," DIMACS Workshop on Discrete Mathematical Problems with Medical Applications, Rutgers University, New Brunswick, New Jersey.

*December 9, 1999    "Some Open Discrete Mathematical Problems in Medical Applications, " DIMACS Workshop on Discrete Mathematical Problems with Medical Applications, Rutgers University, New Brunswick, New Jersey.

*February 12, 2000    "3D Imaging for Medical Applications," 4-hour tutorial, SPIE Medical Imaging Conference, San Diego, California.

*March 6, 2000    "Go Digital, Go Fuzzy," Korean Advanced Institute of Science and Technology, Taejon, Korea.

*March 7, 2000    "Fuzzy Connected Object Definition: Theory, Algorithms and Applications," Korean Advanced Institute of Science and Technology, Taejon, Korea.

*March 8, 2000    "Kinematic Analysis of Joints Via MRI," Seoul National University Hospital, Seoul, Korea.

*March 21, 2000    "A Framework for the Evaluation of Image Segmentation Methods," National Library of Medicine Consortium on Segmentation and Registration Tool Kit, Columbia University, New York, New York.

*April 14, 2000    "Fuzzy Connectedness Object Definition: Theory, Algorithms, Applications," Center for Image Analysis, Uppsala University, Sweden.

*April 18, 2000    "MR Image Standardization: Issues, Approaches and Neuro Applications," Department of Radiology, University of Leiden, Leiden, The Netherlands.

*April 19, 2000    "Fuzzy Connectedness: Principles, Algorithms and Applications in Image Segmentation," Department of Radiology, University of Leiden, Leiden, The Netherlands.

*September 26, 2000    "3D Imaging in Medicine: Principles and Approaches I," A tutorial presented at Multidimensional Imaging, Inc., Newport Beach, California.

*September 27, 2000    "3D Imaging in Medicine: Principles and Approaches II," A tutorial presented at Multidimensional Imaging, Inc., Newport Beach, California.

*September 28, 2000    "3D Imaging in Medicine: Principles and Approaches III," A tutorial presented at Multidimensional Imaging, Inc., Newport Beach, California.

*December 14, 2000    “Go Digital, Go Fuzzy,” Discrete Geometry for Computer Imagery, 9th International Conference, Uppsala, Sweden.

*February 2, 2001    “Go Digital, Go Fuzzy,” GRASP Laboratory, Computer and Information Science Department, University of Pennsylvania, Philadelphia, Pennsylvania.

  February 19, 2001    “Multiobject Relative Fuzzy Connectedness and its Implications in Image Segmentation,” SPIE’s International Symposium Medical Imaging 2001, San Diego, California.

*April 26, 2001    "Multi-Dimensional Image Processing, Visualization, and Analysis Efforts at MIPG: Technologies and Applications," Grand Rounds Seminar, Department of Neuro Surgery, University of Pennsylvania, Philadelphia, Pennsylvania.

*November 8, 2001    “Fuzzy Connectedness in ITK,” NLM SRT Consortium Meeting, Bethesda, Maryland.

*November 15, 2001    “Go Digital, Go Fuzzy,” Columbia University, Bioengineering Department, New York, New York.

  February 25, 2002    “Axiomatic Path Strength Definition for Fuzzy Connectedness and the Case of Multiple Seeds,” SPIE International Symposium on Medical Imaging (Image Processing), San Diego, California.

  February 26, 2002    “Methodology for Evaluating Image Segmentation Algorithms,” SPIE International Symposium on Medical Imaging (Image Processing), San Diego, California.

*March 6, 2002    “Three-Dimensional Imaging: A Current Perspective,” SIAM Life Sciences Conference, Boston, Massachusetts.

*April 24, 2002    “Go Digital, Go Fuzzy, Go Multidimensional,” IM Distinguished Seminar Series, Siemens Corporate Research, Princeton, New Jersey.

*October 7, 2002    “A Framework for Evaluating Image Segmentation Algorithms,” National Library of Medicine, Meeting of the ITK Consortium, Bethesda, Maryland.

*December 11, 2002    “Evaluating Image Segmentation algorithms,” Center for Image Analysis, Uppsala University, Uppsala, Sweden.

*December 12, 2002    “Analysis of Fibers via Images of the Paper,” Opponent’s view of the Ph.D. thesis of Mattias Arensson, Center for Image Analysis, Uppsala University, Uppsala, Sweden.

*February 6, 2003    “Model-Based Image Segmentation,” National Library of Medicine ITK Consortium Meeting, Philadelphia, Pennsylvania.

*March 17, 2003    “Data Reconstruction, Interpretation, and Informatics: Research Needs in Image Segmentation, Registration, Visualization,” NIBIB Workshop on Defining   the State-of-the Art in Biomedical Imaging: Research needs for the Future,” Jackson, Mississippi.

*April 4, 2003    “Fuzzy Connectedness and Image Segmentation,” DIMACS Workshop on Medical Applications in Computational Geometry, Rutgers University, New Brunswick, New Jersey.

*April 8, 2003    “Fuzzy Connectedness: Theory, Algorithms, and Applications,” University of Rennes, Rennes, France.

*April 11, 2003    “A Framework for Evaluating Image Segmentation Algorithms,” ENST - Bretagne, Brest, France.

*April 23, 2003    “Multidimensional Image Processing, Reconstruction, Visualization and Analysis: Technologies and Applications,” Section of Biomedical Image Analysis, Department of Radiology, University of Pennsylvania, Philadelphia, Pennsylvania.

*July 4, 2003    “Fuzzy Connectedness and Image Segmentation,” Philips Medical Systems, Bangalore, India.

*September 5, 2003    “Go Digital, Go Fuzzy, Go Multidimensional!” Workshop on New Mathematics for Medical Imaging, Baton Rouge, Louisiana.
*September 22, 2003    “Active Appearance Model-Based Segmentation Into ITK,” National Library of Medicine ITK Consortium Meeting, Bethesda, Maryland.

*September 22, 2003    “A Framework for Evaluating Image Segmentation Algorithms,” National Library of Medicine ITK Consortium Meeting, Bethesda, Maryland.

  February 19, 2004    “Delineation Operating Characteristic (DOC) Curve for Assessing the Accuracy Behavior of Image Segmentation Algorithms,” SPIE International Symposium on Medical Imaging, Image Processing, San Diego, California.

*April 15, 2005    “The Need for Digital, Fuzzy, and Multidimensional Approaches in Computer Assisted Visualization and Analysis of Images,” Mayo Clinic, Rochester, Minnesota.

*November 27, 2005    “Three-Dimensional Image Processing, Analysis, and Visualization: Methods and Techniques,” Categorical Course in Diagnostic Radiology Physics: Multidimensional Image Processing, Analysis, and Display – Introduction to Multidimensional Medical Imaging, 91st RSNA Scientific Assembly and Annual Meeting, McCormick Place, Chicago.

*December 18, 2005    “An Overview of Medical Image Processing, Visualization, and Analysis,” Part I, A tutorial presented at the First International Conference on Pattern Recognition and Machine Intelligence PREMI 2005, Kolkata, India.

*December 18, 2005    “An Overview of Medical Image Processing, Visualization, and Analysis,” Part II, A tutorial presented at the First International Conference on Pattern Recognition and Machine Intelligence PReMI 2005, Kolkata, India.

*December 19, 2005    “Go Digital, Go Fuzzy,” First International Conference on Pattern Recognition and Machine Intelligence PReMI 2005, Kolkata, India.

*December 21, 2005    “A Framework for Evaluating Image Segmentation Methods,” Department of Computer Science and Engineering,” Jadavpur University, Kolkata, India.

*January 3, 2006    “The Need for Digital, Fuzzy, and Multidimensional Approaches in Computer Assisted Visualization and Analysis of Images,” GE Global Research, Bangalore, India.
 
Bibliography: The order of appearance of names does not necessarily reflect the level of author contribution since several different systems were used (for example, I have often given primary authorship to my juniors - postdocs, programmers and students irrespective of their contribution). I have tried, therefore, to indicate, to the best of my judgment, my contribution in these works using the following codes. No code is assigned to publications of which I am the only author.

(0)     - Primary
(1)     - At least as much as the contribution of others
(2)     - Secondary


Journal Papers:

(0)    Udupa, J.K., Murthy, I.S.N., A model for visual recognition of alphanumerics, International Journal of System Sciences 5(6):575-603, 1974.
(0)    Murthy, I.S.N., Udupa, J.K., A search algorithm for skeletonization of thick patterns, Computer Graphics and Image Processing 3:247-259, 1974.
(0)    Udupa, J.K., Murthy, I.S.N., Some new concepts for encoding line patterns, Pattern Recognition 7:225-233, 1975.
(0)    Udupa, J.K., Murthy, I.S.N., Machine visualization of three-dimensional objects via skeletal transformations, IEEE Transactions on Systems, Man and Cybernetics SMC-7(6):424-434, 1977.
(0)    Udupa, J.K., Murthy, I.S.N., New concepts for three-dimensional shape analysis, IEEE Transactions on Computers, C-26:1043-1049, 1977.
(2)    Murthy, I.S.N., Rangaraj, M.R., Udupa, J.K., Goel, A.K., Homomorphic analysis and modeling of ECG signals, IEEE Transactions on Biomedical Engineering, BME-26(6):330-344, 1979.
(0)    Udupa, J.K., Murthy, I.S.N., Syntactic approach to ECG rhythm analysis, IEEE Transactions on Biomedical Engineering, BME-27:370-375, 1980.
(2)    Altschuler, M.D., Censor, Y., Eggermont, P.P.B., Herman, G.T., Kuo, Y.H., Lewitt, R.M. McKay, M.R., Tuy, H., Udupa, J.K., Yau, M., Demonstration of a software package for the reconstruction of the dynamically changing structure of the human heart from cone-beam x-ray projections, Journal of Medical Systems 4(2):289-304, 1980.
Udupa J.K., Determination of 3-D shape parameters from boundary information, Computer Graphics and Image Processing 17:52-59, 1981.
(0)    Udupa, J.K., Srihari, S.N., Herman, G.T., Boundary detection in multidimensions, IEEE Transactions on Pattern Analysis and Machine Intelligence, PAMI-4:41-50, 1982.
Udupa, J.K., Interactive segmentation and boundary surface formation for 3-D digital images, Computer Graphics and Image Processing , 18:213-235, 1982.
(0)    Herman, G.T., Udupa, J.K., Kramer, D.M., Lauterbur, P.C., Rudin, A.M., Schneider, J.S., The three-dimensional display of nuclear magnetic resonance images, Optical Engineering 21:923-926, 1982.
(1)    Axel, L., Herman, G.T., Udupa, J.K., Bottomley, P.A., Edelstein, W.A., Three-dimensional displays of nuclear magnetic resonance cardiovascular images, Journal of Computer Assisted Tomography, 7(1):172-174, 1983.
(0)    Herman, G.T., Udupa, J.K., Display of 3-D information in 3-D digital images: Computational foundations and medical applications, IEEE Computer Graphics and Applications 3:39-46, 1983 (invited paper).
(2)    Herman, G.T., Axel, L., Bajcsy, R., Kundel, H., LeVeen, R., Udupa, J.K., Wolf, G Model-driven visualization of coronary arteries, Radiation Medicine 1(2):111-116, 1983.
Udupa, J.K Display of 3-D information in discrete 3-D scenes produced by computerized tomography, Proceedings of the IEEE, 71:420-431, 1983 (invited paper).
(0)    Bloch, P., Udupa, J.K., Applications of computerized tomography to radiation therapy and surgical planning, Proceedings of the IEEE, 71:351-355, 1983.
(0)    Brewster, L.J., Trivedi, S.S., Tuy, H.K., Udupa, J.K., Interactive surgical planning, IEEE Computer Graphics and Applications, 4:31-40, 1984.
(1)    Roberts, D., Pettigrew, J., Udupa, J., Ram, C Three-dimensional imaging and display of the temporomandibular joint, Oral Surgery, Oral Medicine and Oral Pathology, 58(4):461-474, 1984.
(1)    Pettigrew, J., Roberts, D., Udupa, J., Riddle, R., Collier, D., Ram, C Identification of an anteriorly displaced meniscus in vitro using 3D image reconstructions, Oral Surgery, Oral Medicine and Oral Pathology, 59:535-542, 1985.
(1)    Chen, L.S., Herman, G.T., Hung, H.M., Levkowitz, H., Trivedi, S.S., Udupa, J.K., Interactive manipulation of three-dimensional data via display device, Optical Engineering, 24(5):893-900, 1985.
(1)    Frieder, G., Herman, G.T., Meyer, C.R., Udupa, J.K., Large software problems for small computers: An example from medical imaging, IEEE Software, 2:37-47, 1985.
(1)    Chen, L.S., Herman, G.T., Reynolds, R.A., Udupa, J.K Surface shading in the Cuberille environment, IEEE Computer Graphics and Applications, 5(12):33-43, 1985.
(1)    Burk, D.L., Mears, D.C., Cooperstein, L.A., Herman, G.T., Udupa, J.K Acetabular fractures: Three-dimensional computed tomographic imaging and interactive surgical planning, CT: The Journal of Computed Tomography, 10:1-10, 1986.
(2)    Trivedi, S.S., Herman, G.T., Udupa, J.K., Segmentation into three classes using gradients, IEEE Transactions on Medical Imaging, MI-5:116-119, 1986.
(1)    Gordon, D., Udupa, J.K Fast surface tracking in three-dimensional binary images, Computer Vision, Graphics and Image Processing, 45:196-214, 1989.
(1)    Hirsch, B.E., Udupa, J.K. Roberts, D., Three-dimensional reconstruction of the foot from computed tomography scans, Journal of the American Podiatric Medical Association, 79(8):384-394, 1989.
(0)    Udupa, J.K., Herman, G.T Volume rendering versus surface rendering, CACM, 32:1364-1366, 1989.
(0)    Raya, S.P., Udupa, J.K., Shape-based interpolation of multidimensional objects, IEEE Transactions on Medical Imaging, MI-9(1):32-42, 1990.
(1)    Toennies, K.D., Udupa, J.K., Herman, G.T., Wornom, I.L., Buchman, S.R., Registration of 3D objects and surfaces, IEEE Computer Graphics and Applications, 10(3):52-62, 1990.
(0)    Udupa, J.K., Ajjanagadde, V.G Boundary and object labelling in three-dimensional images, Computer Vision, Graphics and Image Processing, 51:355-369, 1990.
(0)    Raya, S.P., Udupa, J.K., Barrett, W.A A PC-based 3D imaging system: algorithms, software, and hardware considerations, Computerized Medical, Imaging and Graphics, 14(5):353-370, 1990.
(0)    Udupa, J.K., Hung, H.M., Chuang, K.S Surface and Volume Rendering in Three-Dimensional Imaging: A Comparison, Journal of Digital Imaging, 4(3):159-168, 1991.
(0)    Udupa, J.K., Odhner, D., Fast visualization, manipulation, and analysis of binary volumetric objects, IEEE Computer Graphics and Applications, 11(6):53-62, 1991.
(1)    Lin, K.Y., Bartlett, S.P., Yaremchuk, M.J., Grossman, R.F., Udupa, J.K., Whitaker, L.A An experimental study on the effect of rigid fixation on the developing craniofacial skeleton, Plastic and Reconstructive Surgery, 87:229-235, 1991.
(1)    Kong, T.Y., Udupa, J.K., A Justification of a fast surface tracking algorithm, CVGIP: Graphical Models and Image Processing, 54(2):162 170, 1992.
(0)    Udupa, J.K., Hung, H.M., Odhner, D., Goncalves, R., Multidimensional data format specification: A generalization of the American College of Radiology National Electric Manufacturers Association Standards, Journal of Digital Imaging, 5(1):26-45, 1992.
Udupa, J.K, Applications of digital topology in medical three-dimensional imaging, Topology and Its Applications, 46:181-197, 1992 (invited paper).
(0)    Udupa, J.K., Goncalves, R.J., Medical image rendering, American Journal of Cardiac Imaging, special issue on Computers in Cardiac Imaging Using 3D Reconstruction and Displays (ed.) E. Garcia), 7(3):154-163, 1993 (invited paper).
(0)    Udupa, J.K., Odhner, D., Shell rendering, IEEE Computer Graphics and Applications, 13(6):58-67, 1993.
(2)    McGrath, G.A., Goncalves, R.J., Udupa, J.K., Grossman, R.I., Pavlou, S.N., Molitch, M.E., Rivier, J., Vale, W.W., Snyder, P.J., New technique for quantitation of pituitary adenoma size: Use in evaluating treatment of gonadotroph adenomas with a GnRH antagonist, Journal of Clinical Endocrinology and Metabolism, 7(5):1363-1368, 1993.
(0)    Udupa, J.K., Goncalves, R., Imaging transforms for visualizing surfaces and volumes, Journal of Digital Imaging, 6(4):213-236, 1993.
Udupa, J.K., Multidimensional digital boundaries, CVGIP: Graphical Models and Image Processing, 56(4):311-323, 1994.
Udupa, J.K., Three-dimensional imaging techniques: A current perspective, Academic Radiology, 2:335-340, 1995 (invited paper).
(1)    Bauer, G.R., Hillstrom, H., Udupa, J.K., Hirsch, B.E., Clinical applications of Three-Dimensional magnetic resonance image analysis, Journal of the American Podiatric Medical Association, 86(1):33-37, 1996.
(1)    Hirsch, B.E., Udupa, J.K., Samarasekera, S., A new method of studying joint kinematics from 3D reconstructions of MRI data, Journal of the American Podiatric Medical Association, 86(1):4-15, 1996.
(0)    Udupa, J.K., Samarasekera, S., Fuzzy connectedness and object definition: Theory, algorithms, and applications in image segmentation, Graphical Models and Image Processing, 58(3):246-261, 1996.
(1)    Grevera, G.J., Udupa, J.K., Shape-based interpolation of multidimensional grey-level images, IEEE Transactions on Medical Imaging, 15(6):881-892, 1996.
(1) Samarasekera, S., Udupa, J.K., Miki, Y., Grossman, R.I., A new computer-assisted method for the quantification of enhancing lesions in multiple sclerosis, Journal of Computer Assisted Tomography, 21(1):145-151, 1997.
(1)    Miki, Y., Grossman, R.I., Udupa, J.K., Samarasekera, S., van Buchem, M.A., Cooney, B.S., Pollack, S.N., Kolson, D.K., Polansky, M., Mannon, L.J Computer-assisted quantitation of enhancing lesions in multiple sclerosis: Correlation with clinical classification, AJNR American Journal of Neuroradiology, 18:705-710, 1997.
(0)    Udupa, J.K., Wei, L., Samarasekera, S., Miki, Y., van Buchem, M.A., Grossman, R.I., Multiple sclerosis lesion quantification using fuzzy-connectedness principles, IEEE Transactions on Medical Imaging, 16(5):598-609, 1997.
(1)    van Buchem, M.A., Udupa, J.K., Heyning, F.H., Boncoeur-Martel, M.P., Miki, Y., McGowan, J.C., Kolson. D.L., Polansky, M., Grossman, R.I Global volumetric estimation of disease burden in multiple sclerosis based on magnetization transfer imaging, American Journal of Neuroradiology, 18:1287-1290, 1997.
(0)    Udupa, J.K., Tian, J., Hemmy, D.C., Tessier, P., A pentium personal computer-based craniofacial three-dimensional imaging and analysis system, Journal of Craniofacial Surgery, 8(5):333-339, 1997.
(1)    Rhoad, R.C., Klimkiewicz, J.J., Williams, G.R., Kesmodel, S.B., Udupa, J.K., Kneeland, J.B., Iannotti, J.P., A new in vivo technique for 3D shoulder kinematics analysis, Skeletal Radiology, 27:92-97, 1998.
(0)    Udupa, J.K., Hirsch, B.E., Samarasekera, S., Hillstrom, H., Bauer, G., Kneeland, B., Analysis of in vivo 3D internal kinematics of the joints of the foot, IEEE Transactions on Biomedical Engineering, 45(11):1387-1396, 1998.
(1)    Falcao, A., Udupa, J.K., Samarasekera, S., Sharma, S., Hirsch, B.E., Lotufo, R., User-steered image segmentation paradigms: Live wire and live lane, Graphical Models and Image Processing, 60(4):233-260, 1998.
(2)    Miki, Y., Grossman, R.I., Udupa, J.K., Wei, L., Kolson, D.L., Mannon, L.J., Isolated U-fiber involvement in MS: Preliminary observations, Neurology, 50:1301-1306, 1998.
(2)    Filippi, M., Horsfield, M.A., Hajnal, J.V., Narayana, P.A., Udupa, J.K., Yousry, T.A., Zijdenbos, A., Quantitative assessment of magnetic resonance imaging lesion load in multiple sclerosis, Journal of Neurology, Neurosurgery, and Psychiatry, 64 (Supplement):S88-S93, 1998 (invited paper).
(2)    van Buchem, M.A., Grossman, R.I., Armstrong, C., Polansky, M., Miki, Y., Heyning, F.H., Boncoeur-Martel, M.P., Wei, L., Udupa, J.K., Grossman, M., Kolson, D.L., McGowan, J.C., Correlation of volumetric magnetization transfer imaging with clinical data in MS, Neurology, 50:1609-1617, 1998.
(2)    Phillips, M., Grossman, R.I., Miki, Y., Wei, L., Kolson, D.L., van Buchem, M.A., Polansky, M., McGowan, J.C., Udupa, J.K., Comparison of T2 lesion volume and magnetization transfer ratio histogram analysis and atrophy and measures of lesion burden in patients with multiple sclerosis, ANJR American Journal of Neuroradiology, 19:1055-1060, 1998.
(2)    Kumar, A., Jin, Z., Bilker, W., Udupa, J., Gottlieb, G., Late-onset minor and major depression: Early evidence for common neuroanatomical substrates detected by using MRI, Proceedings of the National Academy of Science, 95:7654-7658, 1998.
(2)    Gonen, O., Viswanathan, A.K., Babb, J., Udupa, J.K., Catalaa, I., Grossman, R.I., Total brain N-Acetylaspatate concentration in normal, age-grouped female volunteers: Quantitation with non-echo proton NMR, Magnetic Resonance in Medicine, 40:684-689, 1998.
(1)    Grevera, G.J., Udupa, J.K., An objective comparison of 3-D image interpolation methods, IEEE Transactions on Medical Imaging, 17(4):642-652, 1998.
(2)    Miki, Y., Grossman, R.I., Udupa, J.K., van Buchem, M.A., Wei, L., Phillips, M.D., Patel, U., McGowan, J.C., Kolson, D.L., Differences between relapsing remitting and chronic progressive multiple sclerosis as determined with quantitative MR imaging, Radiology, 210:769-774, 1999.
Udupa, J.K, Three-dimensional visualization and analysis methodologies: A current perspective, Radiographics, 19:783-806, 1999 (invited paper).
(1)    Stindel, E., Udupa, J.K., Hirsch, B.E., Odhner, D., Couture, C., 3D MR image analysis of the morphology of the rear foot: Application to classification of bones, Computerized Medical Imaging and Graphics, 23(2):75-83, 1999.
(1)    Grevera, G.J., Udupa, J.K., Miki, Y: A., task-specific evaluation of three-dimensional image interpolation techniques, IEEE Transactions on Medical Imaging, 18(2):137-143, 1999.
(2)    Miki, Y., Grossman, R.I., Udupa, J.K., Wei, L., Polansky, M., Mannon, L.J., Kolson, D.L., Relapsing-remitting multiple sclerosis: Longitudinal analysis of MR images - lack of correlation between changes in T2 lesion volume and clinical findings, Radiology, 213:395-399, 1999.
(1)    Stindel, E., Udupa, J.K., Hirsch, B.E., Odhner, D., A characterization of the geometric architecture of the peritalar joint complex via MRI: An aid to classification of feet, IEEE Transactions on Medical Imaging, 18:753-763, 1999.
(1)    Nyul, L.G., Udupa, J.K., On standardizing the MR image intensity scale, Magnetic Resonance in Medicine, 42:1072-1081, 1999.
(2)    Kumar, A., Bilker, W., Jin, Z., Udupa, J., Gottlieb, G., Age of onset of depression and quantitative neuroanatomic measures: Absence of specific correlations, Psychiatry Research Neuroimaging, Section 91:101-110, 1999.
(2)    Catalaa, I., Fulton, J.C., Zhang, X., Udupa, J.K., Kolson, D., Grossman, M., Wei, L., McGowan, J., Polansky, M., Grossman, R.I., MR imaging quantitation of gray matter involvement in multiple sclerosis and its correlation with disability measures and neurocognitive testing, AJNR Acta Neurologica Scandinavica, 20:1613-1618, October, 1999.
(2)    Fulton, J.C., Grossman, R.I., Udupa, J.K., Mannon, L.J., Grossman, M., Wei, L., Polansky, M., Kolson, D.L., MR lesion load and cognitive function in patients with relapsing-remitting multiple sclerosis, AJNR American Journal of Neuroradiology, 20:1951-1955, 1999.
(2)    Patel, U.J., Grossman, R.I., Udupa, J.K., Phillips, M.D., McGowan, J.C., Miki, Y.I., Wei, L., Polansky, M., van Buchem, M.A., Kolson, D., Serial analysis of magnetization transfer histograms and expanded disability status scale scores in relapsing remitting multiple sclerosis, American Journal of Neuroradiology, 20:1946-1950, 1999.
(1)    Saha, P., Udupa, J.K., Scale-based fuzzy connected image segmentation: Theory, algorithms and validation, Computer Vision and Image Understanding, 77(2):145-174, 2000.
(1)    Ge, Y., Grossman, R.I., Udupa, J.K., Luogang, W., Mannon, L.J., Polansky, M., Kolson, D.L., Brain atrophy in relapsing-remitting multiple sclerosis and secondary progressive multiple sclerosis: Longitudinal quantitative analysis, Radiology, 214:665-670. 2000.
(1)    Ge, Y., Grossman, R.I., Udupa, J.K., Fulton, J., Constantinescu, C.S., Gonzales-Scarano, F., Babb, J.S., Mannon, L.J., Kolson, D.L., Cohen, J.A., Glatiramer acetate (copaxone) treatment in relapsing-remitting multiple sclerosis: Quantitative MR assessment, Neurology, 54:813-817, 2000.
(1)    Falcao, A., Udupa, J.K. Miyazawa, F.K., An ultra-fast user-steered image segmentation paradigm: Live-wire-on-the-fly, IEEE Transactions on Medical Imaging, 19(1):55-62, 2000.
(1)    Nyul, L.G., Udupa, J.K., X. Zhang: New variants of a method of MRI scale standardization, EEE Transactions on Medical Imaging, 19(2):143-150, 2000.
(2)    Kumar, A., Bilker, W., Jin, Z., Udupa, J., Atrophy and high intensity lesions: Complementary neurobiological mechanisms in late-life major depression, Neuropsychopharmacology 22(3):264-274, 2000.
(2)    Kaiser. J.S., Grossman, R.I., Polansky, M., Udupa, J.K., Miki, Y., Galetta, S.L., Magnetization transfer histogram analysis of monosymptomatic episodes of neurologic dysfunction: Preliminary findings, AJNR American Journal of Neuroradiology 21:1043-1047, 2000.
(1)    Rice, B.L., Udupa, J.K., Fuzzy connected clutter-free volume rendering for MR angiography, International Journal of Imaging Systems and Technology, 11:62-70, 2000 (invited paper).
(1)    Falcao, A.X., Udupa, J.K., A 3D generalization of user-steered live wire segmentation, Medical Image Analysis, 4:389-402, 2000.
(1)    Catalaa, I., Grossman, R.I., Udupa, J.K., Nyul, L.G., Kolson, D.L., Wei, L., Zhang, X., Polansky, M., Mannon, L.J., McGowan, J.C., Multiple sclerosis: Magnetization transfer histogram analysis of segmented normal appearing white matter, Radiology 216:351-355, 2000.
(1)    Ge, Y., Udupa, J.K., Nyul, L.G., Wei, L., Grossman, R.I., Numerical tissue characterization in MS via standardization of the MR image intensity scale, Journal of Magnetic Resonance Imaging, 12:715-721, 2000.
(1)    Grevera, G.J., Udupa, J.K. Odhner, D., An order of magnitude faster surface rendering in software on a PC than using dedicated rendering hardware, IEEE Transactions on Visualization and Computer Graphics, 6(4):335-345, 2000.
(1)    Hirsch, B.E., Udupa, J.K., Stindel, E., Tarsal joint kinematics via 3D imaging, Critical Reviews in Diagnostic Imaging, 41(6): 403-449, 2000 (invited paper).
(1)    Ge, Y., Grossman, R.I., Udupa, J.K., Babb, J.S., Kolson, D.L., McGowan, J.C., Magnetization transfer histogram analysis of gray matter in relapsing-remitting multiple sclerosis, American Journal of Neuroradiology, 22:470-475, 2001.
(0)    Saha, P.K., Udupa, J.K., Relative fuzzy connectedness among multiple objects: Theory, algorithms, and applications in image segmentation, Computer Vision and Image Understanding, 82(1):42-56, 2001.
(1)    Stindel, E., Udupa, J.K., Hirsch, B.E., Odhner, D., An in vivo analysis of the peri-talar joint complex based on MR imaging, IEEE Transactions on Biomedical Engineering, 48(2):236-247, 2001.
1)    Saha, P.K., Udupa, J.K., Optimum image thresholding via class uncertainty and region homogeneity, IEEE Transactions on Pattern Analysis and Machine Intelligence, 23(7):689-706, 2001.
(1)    Saha, P., Udupa, J.K., Conant, E., Chakraborty, D.P., Sullivan, D., Breast tissue glandularity quantification via digitized mammograms, IEEE Transactions on Medical Imaging, 20(8):792-803, 2001.
(1)    Lei, T., Udupa, J.K., Saha, P.K., Odhner, D., Artery-vein separation via MRA – An image processing approach, IEEE Transactions on Medical Imaging, 20(8):689-703, 2001.
(1)    Ge, Y., Grossman, R.I., Udupa, J.K., Babb, J.S., Nyul, L.G., Kolson, D.L., Brain atrophy in relapsing-remitting multiple sclerosis: Fractional volumetric analysis of gray matter and white matter, Radiology, 220(3):606-610, 2001.
(1)    Saha, P.K., Udupa, J.K., Fuzzy connected object delineation: Axiomatic path strength definition and the case of multiple seeds, Computer Vision and Image Understanding, 83:275-295, 2001.
(2)    Lei, T., Udupa, J.K., A sensor array processing approach to image region detection, IEEE Transactions on Biomedical Engineering, 48(11):1319-1325, 2001.
(0)    Udupa, J.K., Nyul, L.G., Ge, Y., Grossman, R.I., Multiprotocol MR image segmentation in multiple sclerosis: Experience with over 1000 studies, Academic Radiology, 8:1116-1126, 2001.
(1)    Saha, P.K., Udupa, J.K., Scale-based image filtering preserving boundary sharpness and fine structure, IEEE Transactions on Medical Imaging, 20(11):1140-1155, 2001.
(1)    Ge, Y., Grossman, R.I., Udupa, J.K., Babb, J.S., Mannon, L.J., McGowan, J.C., Magnetization transfer ratio histogram analysis of normal appearing gray matter and normal-appearing white matter in multiple sclerosis, Journal of Computer Assisted tomography, 26(1):62-68, 2002.
Abrahams, J.M., Saha, P.K., Hurst, R.W., LeRoux, P.D., Udupa, J.K., Three-dimensional bone-free rendering of the cerebral circulation by use of computed tomographic angiography and fuzzy connectedness, Neurosurgery, 51:264-269, 2002.
(1)    Lei, T., Udupa, J.K., Saha, P.K., Odhner, D., Baum, R., Tadikonda, S.K., Yucel, K., 3D MRA visualization and artery-vein separation using blood-pool contrast agent MS-325, Academic Radiology, 9 (Supplement 1):S127-S133, 2002.
(1)    Moonis, G., Liu, J., Udupa, J.K., Hackney, D.C., Estimation of tumor volume with fuzzy connectedness segmentation of MRI, AJNR American Journal of Neuroradiology, 23:356-363, March 2002.
(0)    Udupa, J.K., Saha, P.K., Lotufo, R.A., Relative fuzzy connectedness and object definition: Theory, algorithms, and applications in image segmentation, IEEE Transactions on Pattern Analysis and Machine Intelligence, 24:1485-1500, 2002.
(1)    Woodburn, J., Udupa, J.K., Hirsch, B.E., Wakefield, R.J., Helliwell, P.S., Reay, N., O’Connor, P., Budgen, A., Emery, P., The geometric architecture of the subtalar and midtarsal joints in rheumatoid arthritis based on magnetic resonance imaging, Arthritis and Rheumatism, 46(12):3168-3177, December, 2002.
(1)    Udupa, J.K., Herman, G.T.: Medical image reconstruction, processing, visualization, and analysis: The MIPG perspective, IEEE Transactions on Medical Imaging, 21:281-295, April 2002 (invited).
(1)    Udupa, J.K., Grevera, G.J., Go digital, go fuzzy, Pattern Recognition Letters, 23:743-754, 2002 (invited paper).
(0)    Liu, J. Udupa, J.K., Odhner, D., McDonough, Arens, R., System for upper airway segmentation and measurement with MR imaging and fuzzy connectedness, Academic Radiology, 10:13-24, 2003.
(2)    Arens, R., McDonough, J.M., Corbin, A.M., Rubin, N.K., Carroll, M.E., Pack, A.I., Liu, J.G., Udupa, J.K., Upper airway size analysis using magnetic resonance imaging in children with obstructive sleep apnea syndrome, American Journal of Respiratory and Critical Care Medicine, 167:65-70, 2003.
(1)    Nyul, L.G., Falcao, A.X., Udupa, J.K., Fuzzy-connected 3D image segmentation at interactive speeds, Graphical Models and Image Processing, 64:259-281, 2003.
(1)    Nyul, L.G., Udupa, J.K., Saha, P.K., Incorporating a measure of local scale in voxel-based 3-D image registration, IEEE Transactions on Medical Imaging, 22:228-237, 2003.
(1)    Lei, T, Udupa, J.K., Odhner, D., Nyul, L.G., Saha, P.K., 3DVIEWNIX-AVS: A software package for the separate visualization of arteries and veins in CE-MRA images, Computerized Medical Imaging and Graphics, 27:351-362, 2003.
(2)    Lei, T., Udupa, J.K., Performance evaluation of finite normal mixture model-based image segmentation techniques, IEEE Transactions on Image Processing, 12(10):1153-1169, 2003.
(0)    Udupa, J.K., Saha, P.K., Fuzzy connectedness in image segmentation, Proceedings of the IEEE, 91(10):1649-1669, 2003 (invited).
(0)    Saha, P.K., Udupa, J.K., Falcao, A.X., Hirsch, B.E., Siegler, S., Iso-shaping rigid bodies for estimating their motion from image sequences, IEEE Transactions on Medical Imaging, 23(1):63-72, 2004.
(1)    Wang, B., Saha, P.K., Udupa, J.K., Ferrante, M.A., Baumgardner, J., Roberts, D.A., Rizi, R.R.: 3D airway segmentation via hyperpolarized 3He gas MRI by using scale-based fuzzy connectedness, Computerized Medical Imaging and Graphics, 28:77-86, 2004.
(2)    Schiffman, P.H., Rubin, N.K., Dominguez, T., Mahboubi, S., Udupa, J.K., O'Donnell, A.R., McDonough, J.M., Maislin, G., Schwab, R.J., Arens, R.: Mandibular dimensions in children with obstructive sleep apnea syndrome, Sleep, 27(5):959-965, 2004.
Gougoutas, A.J., Wheaton, A.J., Borthakur, A., Shapiro, E.M., Kneeland, J.B., Udupa, J.K., Reddy, R.: Cartilage volume quantification via live wire segmentation, Academic Radiology, 11:1389-1395, 2004.
(1)    Siegler, S., Udupa, J.K., Ringleb, S.I., Imhauser, C.W., Hirsch, B.E., Odhner, D., Saha, P.K., Okereke, E., Roach, N.: Mechanics of the ankle and subtalar joints revealed through a three-dimensional stress MRI technique, Journal of Biomechanics, 38(3):567-578, 2005.
(0)    Liu, J.G., Udupa, J.K., Odhner, D., Hackney, Moonis, G., A system for brain tumor volume estimation via MR imaging and fuzzy connectedness, Computerized Medical Imaging and Graphics, 29:21-34, 2005.
(1)    Souza, A., Udupa, J.K., Saha, P.K., Volume rendering in the presence of partial volume effects, IEEE Transactions on Medical Imaging, 24(2):223-235, 2005.
(1)    Madabhushi, A., Udupa, J.K., Interplay between intensity standardization and inhomogeneity correction in MR image processing, IEEE Transactions on Medical Imaging, 24(5):561-576, 2005.
(1)    Ringleb, S.I., Udupa, J.K., Siegler, S., Imhauser, C.W., Hirsch, B.E., Liu, J., Odhner, D., Okereke, E., Roach, N.: The effect of ankle ligament damage and surgical reconstruction on the mechanics of the ankle and subtalar joints revealed by three-dimensional stress MRI, Journal of Orthopedic Research, 23(4):743-749, 2005.
(0)    Zhuge, Y., Udupa, J.K., Saha, P.K.: Vectorial scale-based fuzzy-connected image segmentation, Computer Vision and Image Understanding, 101:177-193, 2006.
(0)    Madabhushi, A., Udupa, J.K., Souza, A.: Generalized scale: Theory, algorithms, and application to image inhomogeneity correction, Computer Vision and Image Understanding, 101:100-121, 2006.
(2)    Brand, R.A., Siegler, S., Pirani, S., Morrison, W., Udupa, J.K.: Cartilage anlagen adapt to static deformation, Medical Hypothesis, 66(3):653-659, 2006.
(0)    Udupa, J.K., LeBlanc, V.R., Zhuge, Y., Imielinska, C., Schmidt, H., Currie, Hirsch, B.E., Woodburn, J.: A framework for evaluating image segmentation algorithms, Computerized Medical Imaging and Graphics, 30(2):75-87, 2006.
(2)    Simon, S., Davis, M., Odhner, D., Udupa, J.K., Winkelstein, B.: CT imaging techniques for describing motions of the cervicothoracic junction and cervical spine during flexion, extension, and cervical traction, Spine, 31:44-50, 2006.
(0)    Madabhushi, A., Udupa, J.K., Moonis, G.: Comparing MR image intensity standardization against tissue characterization of magnetization transfer ratio imaging, Journal of Magnetic Resonance Imaging, accepted.
 (1)    Nystrom, I., Udupa, J.K., Grevera, G.J., Hirsch, B.E., Efficient computation of surface area and enclosed volume from surface representations, IEEE Transactions on Medical Imaging, submitted.
(2)    Falcao, A.F., Rocha, L.M., Udupa, J.K., Shear-warp shell rendering, IEEE Transactions on Medical Imaging, submitted.
(1)    Zhuge, Y, Udupa, J.K., Liu, J., Saha, P.K.: Image Background Inhomogeneity Correction in MRI via Intensity Standardization, Medical Physics, submitted.
(2)    Wootton, D.M., Vaidyanathan, P, Sin, S., Xu, C., McDonough, J.M., Udupa, J.K., Pack, A.I., Guez, A., Arens, R.: Image-based computational fluid dynamics modeling of the upper airway in children with obstructive sleep apnea, Journal of Applied Physiology, submitted.
(0)    Madabhushi, A. and Udupa, J.K.: New methods of image intensity standardization via generalized scale, Medical Physics, submitted.
(2)    Xu, C., Wootton, D.M., Sin, S.H., McDonough, J.M., Udupa, J.K., Guez, A., Arens, R.: Computational fluid dynamics modeling of the upper airway in a child with obstructive sleep apnea syndrome, Journal of Applied Physiology, submitted.
(0)    Zhuge, Y. and Udupa, J.K.: Intensity standardization simplifies brain MR image segmentation, Magnetic Resonance in Medicine, submitted.
(2)    Mark, D.H. and Udupa, J.K.: Multidimensional representation of concepts as cognitive engrams in the human brain, Academic Radiology, submitted.
(1)    Liu, J., Udupa, J.K., Saha, P.K., Odhner, D., Hirsch, B.E., Siegler, S., Simon, S. and Winkelstein, B.A.: Rigid model-based 3D segmentation of the bones of joints in MR and CT images, IEEE Transactions on Medical Imaging, submitted.
(1)    Ciesielski, K.C., Udupa, J.K., Saha, P.K. and Zhuge, Y.: Iterative relative fuzzy connectedness for multiple objects with multiple seeds, Computer Vision and Image Understanding, submitted.
(1)    Ertl-Wagner, B.B., Blume, J.D., Peck, D., Udupa, J.K., Herman, B., Levering, A., Snowdon, S. and Schmalfuss, I.M.: Reliability of Tumor Volume Estimation from MR Images in Patients With Malignant Glioma - Results from the American College of Radiology Imaging Network (ACRIN) 6662 Trial: Part 1, Journal of Clinical Oncology, submitted.
(1)    Ertl-Wagner, B.B., Blume, J.D., Peck, D., Udupa, J.K., Herman, B., Levering, A., Snowdon, S. and Schmalfuss, I.: Operator Dependence and Performance Evaluation of Computer-Assisted Tumor Volume Estimation from MR Images in Patients With Malignant Glioma - Results from the American College of Radiology Imaging Network (ACRIN) 6662 Trial: Part 2, Journal of Clinical Oncology, submitted.
(0)    Liu, J., Udupa, J.K., Oriented Active Shape Models, IEEE Transactions on Pattern Analysis and Machine Intelligence, submitted.
Y. Zhuge, J. K. Udupa, J. Liu, and P. K. Saha, “An Intensity Standardization-Based Method for Inhomogeneity Correction in MRI,” Medical Physics, submitted, 2006.

Patents:

(0)    Udupa, J.K., Samarasekera, S., Extraction of fuzzy object information in multidimensional images for quantifying MS lesions of the brain, US Patent, 5,812,691, September, 1998.
(1)    Nyul, L.G., Udupa, J.K., A method of standardizing the MR image intensity scale, US Patent, 6,284,216, June 2003.
(1)    Saha, Punam K., Udupa, J.K., Scale-based image filtering of magnetic resonance data, U.S. Patent, 6,885,762B2, April 2005.
(0)    Udupa, J.K. Lei, T., Saha, P.K., Odhner, D., Nyul, L., Artery-vein separation via MRA, submitted.


Editorials, Reviews, Chapters:

Udupa, J.K., editor, Digest of papers, 6th All India Symposium on Biomedical Engineering, December 14-16, 1976, Bangalore, Indian Institute of Science, Bangalore.
(2)    Altschuler, M.D., Censor, Y., Herman, G.T., Lent, A., Lewitt, R.M., Srihari, S.N., Tuy, H., Udupa, J.K., Mathematical aspects of image reconstruction from projections, Progress in Pattern Recognition, Kanal, L., Rosenfeld, A. (eds.), North-Holland Publishing Company, Amsterdam, The Netherlands, pp. 323-375, 1981.
Udupa, J.K., Computing in biomedicine, Encyclopedia of Computer Science and Engineering, 2nd Edition, Ralston, A. (Ed.), Reilly, E.D. Jr., (Assoc., Ed.), Van Nostrand Reinhold Company, New York, pp. 169-174, 1983.
(0)    Udupa, J.K., Hung, H.M., Chen, L.S., Interactive display of 3D medical objects, Proceedings of the NATO Advanced Study Institutes Program, Pictorial Information Systems in Medicine, Ed., K.H. Hohne, Springer-Verlag, Berlin, pp. 445-457, 1986.
(1)    Herman, G.T., Trivedi, S.S., Udupa, J.K., Manipulation of 3D imagery, in Progress in Medical Imaging, Vernon L. Newhouse (ed.), Springer-Verlag, New York, pp. 123-157, 1988.
Udupa, J.K., Computer aspects of 3D imaging in machine: a tutorial in “3D Imaging in Medicine,” J.K. Udupa, G.T. Herman (eds.), CRC Press, Inc., Boca Baton, Florida, pp. 1-69, 1991.
Udupa, J.K., Introduction to 3D Discrete Space, in “Tutorial on Volume Visualization,” Arie Kaufman (ed.), IEEE Computer Society Press, Piscataway, New Jersey, pp. 241-243, 1991.
(0)    Udupa, J.K., Goncalves, R.J., Iyer, K., Narendula, S., Odhner, D., Samarasekera, S. and Sharma, S., 3D Imaging Systems, Medical Physics Monograph 22, Editors, W.R. Hendee and J.H. Trueblood, Proceedings of the AAPM 1993 Summer School, Charlottesville, Virginia, pp. 323-402, 1993.
Udupa, J.K., 3D Visualization of Images, Medical Physics Monograph 22, Editors, W.R. Hendee and J.H. Trueblood, Proceedings of the AAMP 1993 Summer School, Charlottesville, Virginia, pp. 323-402, 1993.
(0)    Udupa, J.K., Goncalves, R.J., Imaging transforms for volume visualization, in "Computer Integrated Surgery," R.H. Taylor, S. Lavall'ee, G.G. Burdea and R. Mosges (eds.), MIT Press, Cambridge, Massachusetts, pp. 33-58, 1996.
Udupa, J.K., Connected, oriented, closed boundaries in digital spaces: Theory and algorithms, in "Topological Algorithms for Digital Image Processing," T.Y. Kong and A. Rosenfeld (eds.), Elseivier Science Publishers B-V, Amsterdam, The Netherlands, pp. 205-231, 1996.
Udupa, J.K., Three-dimensional imaging: Principles and approaches, in "3D Imaging in Medicine," 2nd edition, J.K. Udupa and G.T. Herman (eds.), CRC Press, Inc., Boca Raton, Florida, pp. 1-73, 2000.
Udupa J.K., Three-dimensional visualization: Principles and approaches, in "Handbook of Medical Imaging: Volume 3, Display and PACS," Yongmin Kim and Steve Horii (eds.), SPIE Press, Bellingham, Washington, pp. 5-65, 2000.
(1)    Hirsch, B.E., Udupa, J.K., Stindel, E., Tarsal Joint Kinematics via 3D Imaging, in "3D Imaging in Medicine," J.K. Udupa and G.T. Herman (eds.), CRC Press, Boca Raton, Florida, pp. 329-359, 2000.
(1)    Goshtasby, A., Sonka, M., Udupa, J.K., (guest editors) "Introduction: Analysis of Volumetric Images," Computer Vision and Image Understanding, 77:79-83, 2000.
(1)    Goshtasby, A., Sonka, M., Udupa, J.K., (guest editors), "Analysis of Volumetric Images," special issue of Computer Vision and Image Understanding, vol. 77, 2000.
(1)    Nyul, L.G., Udupa, J.K., "MR Image Analysis in Multiple Sclerosis," in "Advances in Multiple Sclerosis - Neuroimaging Clinics of North America," Joseph A. Frank (editor), 10(4):799-815, 2000.
(1)    Udupa, J.K., Grevera, G.J., Comment on “Subunity Coordinate Translation With Fourier Transform to Achieve Efficient and Quality Three-Dimensional Medical Image Interpolation,” Medical Physics 27(4):818-820, 2000.
(1)    Udupa, J.K., Fenster, A., (Editors), Proceedings of SPIE, Volume 4549, Proceedings of the Conference on Medical Image Acquisition and Processing, Wuhan, China, October 23-24, 2001.
(0)    Udupa, J.K., Saha, P.K., Fuzzy Connectedness, in Image Processing via ITK, Terry Yoo (Editor), 2003.
(1)    Roux, C., Udupa, J.K. (Editors), Emerging Medical Imaging Technology, special issue of the Proceedings of the IEEE, 91(10), 2003.


Books:

(0)    J.K. Udupa, G.T. Herman (Editors): 3D Imaging in Medicine, CRC Press Inc., Boca Raton, Florida, 1991.
(0)    J.K. Udupa, G.T. Herman (Editors): 3D Imaging in Medicine, 2nd edition, CRC Press, Inc., Boca Raton, Florida, 2000.


Conference Papers (all are full papers, some are reviewed):

(0)    Udupa, J.K., Murthy, I.S.N., Effectiveness of linear prediction parameters for ECG pattern recognition, Proceedings of the 6th All India Symposium on Biomedical Engineering, December 14-16, pp. 133-134, 1976, Bangalore.
(0)    G.T. Herman, S. Srihari and J. Udupa: “Detection of Changing Boundaries in Two- and Three-Dimensions,” Proceedings of the Workshop on Time Varying Imagery, (eds.) N.I. Badler, J.K. Aggarwal, University of Pennsylvania, Philadelphia, Pennsylvania, pp. 14-16, April, 1979.
(0)    Srihari, S.N., Udupa, J.K., Yau, M.M., Understanding the bin of parts, Proceedings 1979 International Conference on Cybernetics and Society, Denver, Colorado, October 8-10, pp. 44-49, 1979.
(1)    G.T. Herman, J.K. Udupa, D.M. Kramer, A.M. Rudin and J.S. Schneider: “Three-Dimensional Display of Nuclear Magnetic Resonance Images,” SPIE Proceedings, 273:35-44, 1981.
Udupa, J.K., Segmentation and boundary surface formation for 3-D digital images, SPIE Proceedings, 271:107-113, 1981.
(2)    Herman, G.T., Reynolds, R.A., Udupa, J.K., Computer techniques for the representation of three-dimensional data on a two-dimensional display, Proceedings of the Society of Photo-Optical Instrumentation Engineers, 367:3-14, 1982.
(0)    Udupa, J.K., Tuy, H., Encoding 3-D discrete surfaces, Proceedings of the World Congress on Medical Physics and Biomedical Engineering, Hamburg, 18.06, 1982.
(0)    Tuy, H.K., Udupa, J.K., Representation, display and manipulation of 3-D discrete scenes, Proceedings of 16th Hawaii International Conference on System Sciences, II:397-406, 1983.
(0)    Herman, G.T., Udupa, J.K., Display of multiple surfaces, Proceedings of the Third World Congress on Nuclear Medicine and Biology, in Nuclear Medicine and Biology Advances, 2, C. Raynaud, (ed.), Pergamon Press, Oxford, England, pp. 2161-2168, 1983.
(0)    Udupa, J.K., Tuy, H., Display of 3D information in medical images using directed-contour representation, Proceedings The Fourth Annual Conference and Exposition of the of National Computer Graphics Association, pp. 98-105, 1983.
(1)    Roberts, D., Pettigrew, J. Udupa, Three-dimensional imaging of the temporomandibular joint in vitro and in vivo, IEEE Proceedings of the Seventh Annual Symposium on Computer Applications in Medical Care, Silver Spring, Maryland, pp. 779-782. 1983.
(0)    Chen, L.S., Herman, G.T., Meyer, C.R., Reynolds, R.A., Udupa, J.K., 3D83 - An easy-to-use software package for three-dimensional display from computed tomograms, Proceedings of IEEE Computer Society International Symposium on Medical Images and Icons, Arlington, Virginia, pp. 309-316, 1984.
(1)    Chen, L.S., Herman, G.T., Hung, H.M., Levkowitz, H., Trivedi, S.S., Udupa, J.K., Interactive manipulation of 3D data via a 2D display device, SPIE Proceedings, 507:25-37, 1984.
(0)    Chen, L.S., Hung, H.M., Udupa, J.K., Towards real-time interactive display of 3D objects, Proceedings, 18th Hawaii International Conference on System Sciences, III:160-172, Honolulu, January 2-5, 1985.
(2)    Stalnecker, M.C., Whitaker, L.H., Udupa, J.K., Katowitz, J.A., Applications of three-dimensional imaging, ASPRS/PSEF/ASMS Annual Scientific Meeting, Plastic Surgical Forum, III:89-91, Kansas City, October 27-November 1, 1985.
(0)    Udupa, J.K., Herman, G.T., Margasahayam, P.S., Chen, L.S., Meyer, C.R., 3D98: A turnkey system for the display and analysis of 3D medical objects, SPIE Proceedings, 671:154-168, 1986.
Udupa, J.K., Computerized surgical planning: current capabilities and medical needs, SPIE Proceedings, 626:474-482, 1986.
(2)    Trivedi, S.S., Herman, G.T., Udupa, J.K., Chen, L.S., Margasahayam, P., Measurements on 3D surface displays in the clinical environment, Proceedings of the 7th Annual Conference and Exposition of the National Computer Graphics Association, III:93-99, 1986.
(0)    Udupa, J.K., Roberts, D., Christiansen, E., Quantified three-dimensional imaging techniques for biomechanical analysis of skeletal joints, Proceedings of the IEEE Engineering in Medicine and Biology Society 8th Annual Conference, 2:1079-1083, Fort Worth, November 7-10, 1986.
(1)    Robert, D., Udupa, J.K., Christiansen, E., Chiang, H.M., Joint surface congruency and loading investigated "in vivo" via quantified, interactive, 3D imaging, Proceedings of the 8th Annual Conference and Exposition of the National Computer Graphics Association, III:138-151, 1987.
Udupa, J.K., 3D imaging in medicine, Proceedings of the 8th Annual Conference and Exposition of the National Computer Graphics Association, II:73-104, 1987.
Udupa, J.K., A unified theory of objects and their boundaries in multidimensional digital images, Proceedings of Computer Assisted Radiology, CAR'87, pp. 779-784, July 1-4, 1987, (ed.) H.U. Lemke, M.L. Rhodes, C.C. Jaffee, R. Felix, Berlin.
(2)    Stalnecker, M.C., Whitaker, L.A., Rosen, H.R., Herman, G., Udupa, J., Applications of volume determination in three-dimensional imaging, in Craniofacial Surgery, pp. 25-26, D. Marchac (ed.), Springer Verlag, Berlin, Germany, 1987.
(2)    Barrett, William A., Udupa, J.K., Dynamic display and quantitative analysis of three-dimensional left ventricular pathology, IEEE Proceedings of Computers in Cardiology, pp. 7-12, Washington, D.C. September 1988.
(1)    Chuang, K.S., Udupa, J.K., Boundary detection in grey-level scenes, Proceedings of the Tenth Annual Conference and Exposition of the National Computer Graphics Association, NCGA'89, I:112-117,1989.
(0)    Toennies, K.D., Udupa, J.K., Herman, G.T., Segmentation of implanted bone grafts using anatomical landmarks, Proceedings of the National Computer Graphics Association Conference NCGA'89, I:207-214, 1989.
(1)    Barrett, W.A., Raya, S.P., Udupa, J.K., A low-cost PC-based image workstation for dynamic interactive display of three-dimensional anatomy in Medical Imaging III: Image Capture and Display, Samuel J. Dwyer, R. Gilbert Jost and Roger H. Schneider (eds.), SPIE Proceedings, 1091:346, 1989.
(0)    Udupa, J.K., Odhner, D., Interactive surgical planning: High-speed object rendition and manipulation without specialized hardware, Proceedings of the First Conference on Visualization in Biomedical Computing, VBC’90, pp. 330-336, May 22-25, 1990.
(0)    Hirsch, B.E., Udupa, J.K., Goncalves, R., Roberts, D., Kinematics of the joints of the foot via three-dimensional magnetic resonance images, Proceedings of the First Conference on Visualization in Biomedical Computing, VBC’90, pp. 232-237, May 22-25, 1990.
Udupa, J.K., Visualization in biomedical computing: principles and algorithms, Tutorial Notes, First Conference on Visualization in Biomedical Computing, VBC'90, May 22-25, 1990, Atlanta, Georgia.
(0)    Udupa, J.K., Raya, S.P., Barrett, W.A., A PC-based 3D imaging system for biomedical data, Proceedings of the First Conference on Visualization in Biomedical Computing, VBC’90, pp. 295-303, May 22-25, 1990.
(0)    Udupa, J.K., Hung, H.M., Surface versus volume rendering: A comparative assessment, Proceedings of the First Conference on Visualization in Biomedical Computing, VBC’90, pp. 83-91, May 22-25, 1990.
(0)    Udupa, J.K., Hung, H.M., Odhner, D., Goncalves, R.C., 3DVIEWNIX: A machine-, data, application-     independent software environment for the visualization and analysis of biomedical structures, Proceedings of Scanning 91, 13 (Supplement) I:I32-I33, 1991.
(0)    Udupa, J.K., Hung, H.M., Odhner, D. Goncalves, R.J., Samarasekera, S., 3DVIEWNIX: A data-, machine-, and application-independent software system for multidimensional data visualization and analysis, SPIE Proceedings, 1653:185-191, 1992.
(0)    Udupa, J.K., Samarasekera, S., Barrett, W.A., Boundary detection via dynamic programming, Visualization in Biomedical Computing, SPIE Proceedings, VBC'92, 1808:33-37, 1992.
(2)    Lotufo, R.A., Herman, G.T., Udupa, J.K., Combining shape-based and gray-level interpolations, Visualization in Biomedical Computing, SPIE Proceedings, VBC'92, 1808:289-298, 1992.
(0)    Udupa, J.K., Hung, H.M., Odhner, D., Goncalves, R., Samarasekera, S., Multidimensional image and structure data representation: A generalization of the ACR-NEMA standards, Visualization in Biomedical Computing, SPIE Proceedings, VBC'92, 1808:625-637, 1992.
(0)    Udupa, J.K., Hirsch, B.E., Samarasekera, S., Goncalves, R.J., Joint kinematics via three-dimensional MR imaging, Visualization in Biomedical Computing, SPIE Proceedings, VBC'92, 1808:664-670, 1992.
(0)    Udupa, J.K., Hirsch, B.E., Samarasekera, S., Goncalves, R.J., Kinematics of joints via three-dimensional MR imaging, Proceedings of the 14th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, pp. 2059- 2060, Part 5, Paris, October 29-November 1, 1992.
(0)    Udupa, J.K., Odhner, D., Hung, H.M., Goncalves, R.J., Samarasekera, S., 3DVIEWNIX: A machine independent software system for the visualization and analysis of multidimensional biomedical images, Proceedings of the 14th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, pp. 2082-2083, Part 5, Paris, October 29-November 1, 1992.
(0)    Udupa, J.K., Hung, H.M., Odhner, D. and Goncalves, R.J., 3DVIEWNIX: A Machine-Independent Software System for the Visualization and Analysis of Multidimensional Biomedical Images. Scanning, The Journal of Scanning Microscopy, 14 (Supplement II):II8-II10, 1992.
(0)    Udupa, J.K. and Odhner, D., Shell Rendering: Fast Volume Rendering and Analysis of Fuzzy Surfaces, SPIE Proceedings, 1653:35-43, 1992.
(1)    Mortensen, E.N., Morse, B.S., Barrett, W.A., Udupa, J.K., Boundary detection via dynamic programming, SPIE Proceedings, 1808:33-39, 1992.
(1)    Mortensen, E., Morse, B., Barrett, W., Udupa, J., Adaptive Boundary Detection Using “Live-Wire” Two-Dimensional Dynamic Programming, IEEE Proceedings of Computers in Cardiology, pp. 635-638, 1992.
(0)    Udupa, J.K., Goncalves, R.J., Iyer, K., Narendula, S., Odhner, D., Samarasekera, S. and Sharma, S., Imaging Transforms for 3D Biomedical Imaging: An Open, Transportable System (3DVIEWNIX) approach, Proceedings of Computer Assisted Radiology, CAR'93, pp. 369-378, Springer-Verlag, Berlin, 1993.
(0)    Udupa, J.K., Odhner, D., Samarasekera, S., Goncalves, R.J., Iyer, K., Narendula, S. and Sharma, S., 3DVIEWNIX: An Open, Transportable Software System for the Visualization and Analysis of Multidimensional Multimodality, Multiparametric Images, SPIE Proceedings, 1897:47-58, 1993.
(2)    Smith, N.L., Hillstrom, H.J., Hirsch, B.E., Udupa, J.K., Comparison of Kinematic Measurement: Stereometry and 3-D MRI Reconstruction, Proceedings, 15th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, pp. 1069-1070, San Diego, California, 1993.
(0)    Udupa, J.K. Odhner, D., Samarasekera, S., Goncalves, R., Iyer, K., Venugopal, K., and Furuie, S., 3DVIEWNIX: An open, transportable, multidimensional, multimodality, multiparametric imaging software system, SPIE Proceedings, 2164:58-73, 1994.
(1)    Grevera, G.J., Udupa, J.K., Shape-based interpolation of multidimensional grey-level images, SPIE Proceedings, 2164:14-21, Newport Beach, California, 1994.
(0)    Udupa, J.K., Samarasekera, S., Venugopal, K.P., Grevera, G., Fuzzy objects and their boundaries, SPIE Proceedings, 2359:50-58, 1994.
(2)    Parks, N., Hirsch, B.E., Hillstrom, H.J., Udupa, J.K., Stereometry and 3-D MRI reconstruction for kinematics of the rearfoot: A cadaver study, Proceedings of the 16th International Conference of the IEEE Engineering in Medicine and Biology Society, Baltimore, Maryland, pp. 562-563, 1994.
(1)    Hirsch, B.E., Udupa, J.K., Samarasekera, S., Kinematics of the tarsal joints via 3D MR imaging, SPIE Proceedings, 2359:672-679, 1994.
(2)    Odhner, D., J.K. Udupa: Shell manipulation: Interactive alteration of multiple-material fuzzy structures, SPIE Proceedings, 2431:35-42, 1995.
(0)    Udupa, J.K., Samarasekera, S., Fuzzy connectedness and object definition, SPIE Proceedings, 2431:2-11, 1995.
(1)    Grevera, G.J., Udupa, J.K., Shape-based interpolation of nD grey scenes, SPIE Proceedings, 2707:106-116, 1996.
(1)    Grevera, G.J., Udupa, J.K., Shape-based image compression, SPIE Proceedings, 2707:294-300, 1996.
(2)    Grevera, G.J., J.K. Udupa: Deformation of n-dimensional digital Jordan surfaces, SPIE Proceedings, 2710:607-613, 1996.
(0)    Udupa, J.K., Samarasekera, S., Miki, Y., Grossman, R.I., Detection and quantification of MS lesions using fuzzy topological principles, SPIE Proceedings, 2710:81-91, 1996.
(0)    Falcao, A.X., Udupa, J.K., Samarasekera, S., Hirsch, B.E., User-steered image boundary segmentation, SPIE Proceedings, 2710:278-288, 1996.
(1)    Palagyi, K., Udupa, J.K., Medical image registration based on fuzzy objects, Proceedings of Computational Modelling, Imaging and Visualization in Biosciences, pp. 44-48, Sopron, Hungary, August 29-31, 1996.
(2)    Furuie, S.S., Rebelo, M.F.S., Gutierrez, M.A. and Udupa, J.K., Segmentacão de imagens médicas 3D baseado em vetor de atributos e conectividade competitiva, III Forum of Science and Technology in Health, pp. 597-598, Campas du Jordaō, SP, Brazil, October 13-17, 1996.
(1)    Falcao, A., Udupa, J.K., Segmentation of 3D objects using live wire, SPIE Proceedings, 3034:228-235, 1997.
(0)    Udupa, J.K., Wei, L., Miki, Y., Grossman, R.I., A system for the comprehensive analysis of multiple sclerosis lesion load based on MR imagery, SPIE Proceedings, 3031:610-618, 1997.
(0)    Udupa, J.K., Odhner, D., Tian, J., Holland, G., Axel, L., Automatic clutter-free volume rendering for MR angiography using fuzzy connectedness, SPIE Proceedings, 3034:114-119, 1997.
(1)    Grevera, G., Udupa, J., Objective comparison of interpolation methods, SPIE Proceedings, 3031, pp. 2-11, 1997.
(0)    Udupa, J.K., Tian, J., Hemmy, D.C., A pentium PC-based craniofacial 3D imaging and analysis system, SPIE Proceedings, 3031:138-146, 1997.
(1)    Grevera, G.J. Udupa, J.K., Task-specific evaluation of interpolation techniques, SPIE Proceedings, 3335:28-39, 1998.
(0)    Udupa, J.K., Hemmy, D.C., Fuzzy connected object rendering, SPIE Proceedings, 3335:452-461, 1998.
(1)    Stindel, E., Udupa, J.K., Hirsch, B.E., 3D architecture of the rear foot from MRI data: Technical validation and clinical description, SPIE Proceedings, 3335:479-487, 1998.
Udupa, J.K., 3D imaging for medical applications, Notes for 1-day short course, SPIE Medical Imaging, 129 pages, 1998.
Udupa, J.K., 3D-imaging: Where do we stand? SPIE Proceedings, 3545:614-624, 1998.
(0)    Udupa, J.K., Saha, P.K., Lotufo, R. A., Fuzzy-connected object definition in images with respect to co-objects, SPIE Proceedings, 3661:236-245, 1999.
(1)    Saha, P.K., Udupa, J.K., Scale-based fuzzy connectivity: A novel image segmentation methodology and its validation, SPIE Proceedings, 3661:246-257, 1999.
(1)    Saha, P.K., Udupa, J.K., Conant, E.F., Chakraborty, D.P., Near-automatic segmentation and quantification of mammographic glandular tissue density, SPIE Proceedings, 3661:266-276, 1999.
Carnielli, G.P., Falcao, A.X., Udupa, J.K., Fast digital perspective shell rendering, Proceeding of 12th Brazilian Symposium on Computer Graphics and Image Processing, pp. 105-111. Campinas, SP, Brazil, October, 1999.
(1)    Falcao, A.X., Udupa, J.K., Miyazawa, F.K., Ultrafast user-steered segmentation paradigm: Livewire-on-the-fly, SPIE Proceedings, 3661:184-191, 1999.
(1)    Grevera, G.J., Udupa, J.K., Order of magnitude faster surface rendering via software in a PC than using dedicated hardware, SPIE Proceedings, 3658:202-211, 1999.
(1)    Nyul, L.G., Udupa, J.K., Approach to standardize MR image intensity scale, SPIE Proceedings, 3658:595-603, 1999.
(1)    Lei, T., Udupa, J.K., Saha, P.K., Odhner, D., 3D MR angiographic visualization and artery-vein separation, SPIE Proceedings, 3658:58-66, 1999.
(2)    Lei, T., Udupa, J.K., A Multivariate approach to functional MRI analysis for brain function study, SPIE Proceedings, 3660:10-18, 1999.
(1)    Stindel, E., Udupa, J.K., Hirsch, B.E., Odhner, D., 3D analysis of the peritalar complex using MR imaging in live patients, SPIE Proceedings, 3660:500-511, 1999.
(1)    Nyul, L.G., Udupa, J.K., X. Zhang: New variants of a method of MRI scale normalization, in Information Processing in Medical Imaging: 16th International Conference/IPMI'99, Proceedings. Attila Kuba, Martin Samal and Andrew Todd-Pokropek (eds.) Lecture Notes in Computer Sciences, 1613:490-495, 1999.
(1)    Carnielli, G.P., Falcao, A.X., Udupa, J.K., Fast digital perspective shell rendering. XII Brazilian Symposium on Computer Graphics and Image Processing, pp. 105-111, sponsored by SBC, IEEE Press, Campinas - SP, Brazil, October, 1999.
Udupa, J.K., A study of 3D imaging approaches in medicine, Proceedings of DIMACS Workshop Discrete Mathematical Problems with medical applications, pp. 209-216, American Mathematical Society, Providence, Rhode Island, December 8-10, 1999.
(1)    Nyul, L.G., Udupa, J.K., Standardizing MR intensity scales: Making MR intensities have tissue specific meaning, SPIE Proceedings, 3976:496-504, 2000.
(1)    Nyul, L.G., Falcao, A.X., Udupa, J.K., Fuzzy-connected 3D object segmentation at interactive speeds for medical applications, SPIE Proceedings, 3979:212-223, 2000.
(1)    Saha, P.K., Udupa, J.K., A new optimum thresholding method using region homogeneity and class uncertainty, SPIE Proceedings, 3979:180-191, 2000.
(2)    Saha, P.K. Udupa, J.K., Scale-based filtering of medical images, SPIE Proceedings, 3979:735-746, 2000.
(1)    Saha, P.K., Udupa, J.K., Iterative relative fuzzy connectedness and object definition: Theory, algorithms, and applications in image segmentation, Proceedings of IEEE Workshop on Mathematical Methods in Biomedical Image Analysis, pp. 28-35, Hilton Head, South Carolina, 2000.
(1)    Grevera, G.J., Udupa, J.K., Volume rendering of medical image data via hardware and in software, SPIE Proceedings, 3976:97-108, 2000.
(0)    Udupa, J.K., Grossman, R.I., Nyul, L.G., Ge, Y., Wei, L., Multiprotocol MR image segmentation in multiple sclerosis: Experience with over 1000 studies, SPIE Proceedings, 3979:1017-1027, 2000.
(1)    Lei, T., Udupa, J.K., Saha, P.K., Odhner, D., Separation of artery and vein in contrast enhanced MRA images, SPIE Proceedings, 3978:233-244 2000.
(1)    Lei, T., Udupa, J.K., Saha, P.K., Odhner, D., Multivariate segmentation of fMRI for human brain mapping, 3978:294-303, 2000.
Udupa, J.K., Go digital, go fuzzy, Proceedings of the 9th International Conference Discrete Geometry for Computer Imagery, pp. 284-295, Springer, New York, New York, 2000.
(1)    Imielinska, C., Metaxas, D., Udupa, J.K., Jin, Y., Cheng, T., Hybrid segmentation of the visible human data Proceedings of the Visible Human Project Conference, Bethesda, Maryland, October 5-9, 2000.
Udupa, J.K., Three-dimensional rendering in medicine: Some common misconceptions, SPIE Proceedings, 4319:660-670, 2001.
(1)    Udupa, J.K., Odhner, D., Eisenberg, H.C., New automatic mode of visualizing the colon via cine CT, SPIE Proceedings, 4319:237-243, 2001.
(1)    Nyul, L.G., Udupa, J.K., Saha, P.K., Task-specific comparison of 3D image registration methods, SPIE Proceedings, 4322:1588-1598, 2001.
(1)    Liu, J.G., Udupa, J.K., Hackney, D., Moonis, G., Brain tumor segmentation in MRI using fuzzy connectedness method, SPIE Proceedings, 4322:1455-1465, 2001.
(1)    Saha, P.K., Udupa, J.K., Abrahams, J.M., Automatic bone-free rendering of cerebral aneurysms via 3D-CTA, SPIE Proceedings, 4322:1264-1272, 2001.
(1)    Grevera, G.J., Udupa, J.K., Odhner, D., T-shell rendering, SPIE Proceedings, 4319:413-425, 2001.
(2)    Lei, T., Udupa, J.K., Blind source separation (BSS) for fMRI analysis, SPIE Proceedings, 4321:312-320, 2001.
(0)    Udupa, J.K., Saha, P.K., Multiobject relative fuzzy connectedness and its implications in image segmentation, SPIE Proceedings, 4322:204-213, 2001.
(1)    Lei, T., Udupa, J.K., Odhner, D., Saha, P.K., 3DVIEWNIX-AVS: A software package for separate visualization of arteries and veins in CE-MRA images, SPIE Proceedings, 4319:515-524, 2001.
(2)    Lei, T., Udupa, J.K., Statistical properties of x-ray CT and MRI: From imaging physics to image statistics, SPIE Proceedings, 4682:82-93, 2002.
(1)    Souza, A.D.A., Udupa, J.K., Saha, P.K., Volume rendering in the presence of partial volume, SPIE Proceedings, 4681: 649-660, 2002.
(1)    Nystrom, I., Udupa, J.K., Grevera, G.J., Hirsch, B.E., Area of and volume enclosed by digital and triangulated surfaces, SPIE Proceedings, 4681:669-680, 2002.
(1)    Zhuge, Y., Udupa, J.K., Liu, J., Saha, P.K., Iwanaga, T., Scale-based method for correcting background intensity variation in acquired images, SPIE Proceedings, 4684:1103-1111, 2002.
(1)    Liu, J., Udupa, J.K., Odhner, D., McDonough, J.M., Arens, R., Upper airway segmentation and measurement in MRI using fuzzy connectedness, SPIE Proceedings, 4683:238-247, 2002.
(0)    Udupa, J.K., Saha, P.K., Axiomatic path strength definition for fuzzy connectedness and the case of multiple seeds, SPIE Proceedings, 4684:123-133, 2002.
(2)    Falcao, A.X., Rocha, L.M., Udupa, J.K., Comparative analysis of shell rendering and shear-warp rendering, SPIE Proceedings, 4681:472-482, 2002.
(0)    Udupa, J.K., LeBlanc, V.R., Schmidt, H., Imielinska, C., Saha, P.K., Zhuge, Y., Molholt, P., Jin, Y., Methodology for evaluating image segmentation algorithms, SPIE Proceedings, 4684:266-277, 2002.
(0)    Saha, P.K., Udupa, J.K., Isoshaping rigid bodies for motion analysis, SPIE Proceedings, 4684:343-352, 2002.
(1)    Zhuge, Y., Udupa, J.K., Saha, P.K., Vectorial scale-based fuzzy connectedness for segmenting anatomical structures in visible human color data sets, SPIE Proceedings, 4684:1476-1487, 2002.
(1)    Nyul, L.G., Udupa, J.K.: Protocol-independent brain MRI segmentation method, SPIE Proceedings, 4684: 1588-1599, 2002.
Falcao, A.X., Rocha, L.M., Udupa, J.K., Combined approach of shell and shear-warp rendering for efficient volume visualization, SPIE Proceedings, 5029:64, 2003.
Montillo, A., Udupa, J.K., Axel, L., Metaxas, D.N., Interaction between noise suppression and inhomogeneity correction in MRI, SPIE Proceedings, 5032(2):1025-1036, 2003.
Grevera, G.J., Udupa, J.K., Alignment of multimodality, 2D and 3D breast images, SPIE Proceedings, 5032(2):1135-1143, 2003.
Lei, T., Udupa, J.K., Zhuge, Y., Moonis, G., Clark, C., Segmentation and quantification of Alzheimer’s disease (AD): A preliminary study, SPIE Proceedings, 5031:30, 2003.
Liu, J., Udupa, J.K., Odhner, D., McDonough, J.M., Arens, R., Segmentation and visualization of tissues surrounding airway in MRI, SPIE Proceedings, 5031:298-307, 2003.
Saha, P.K., Zhang, H., Udupa, J.K., Gee, J.C., Tensor scale-based image registration, SPIE Proceedings, 5032(1):314-324, 2003.
Zhuge, Y., Udupa, J.K., Liu, J., Membership-based multiprotocol MR brain image segmentation, SPIE Proceedings, 5032(3):1572-1579, 2003.
Saha, P.K., Udupa, J.K., Tensor scale-based fuzzy connectedness image segmentation, SPIE Proceedings, 5032(3):1580-1590, 2003.
Liu, J., Udupa, J.K., Saha, P.K., Odhner, D., Hirsch, B.E., Siegler, S., Model-based 3D segmentation of the bones of the ankle and subtalar joints in MR images, SPIE Proceedings, 5032(3):1650-1657, 2003.
Lei, T., Udupa, J.K., Theoretical assessment of image analysis: Statistical vs structural approaches, SPIE Proceedings, 5032(3):1710-1718, 2003.
Lei, T., Udupa, J.K., Image analysis: Recovering the true scene from noisy images, SPIE Proceedings, 5032(3):1719-1727, 2003.
Madabhushi, A., Udupa, J.K., Interplay between intensity standardization and field inhomogeneity correction in MR image processing, SPIE Proceedings, 5032(2):768-779, 2003.
Jin, Y., Imielinska, C., Laine, A.F., Udupa, J., Shen, W., Heymsfield, S.B., Segmentation and Evaluation of Adipose Tissue from Whole Body MRI Scans, Proceedings of MICCAI 2003 Conference, pp. 635-642, Montreal, Nov. 2003.
Udupa, J.K., Siegler, S., Hirsch, B.E., Ringleb, S.I. Okereke, E., Roach, N., Saha, P.K., Imhauser, C.W., Odhner, D., Liu, J., Three-dimensional stress MRI for studying the functional pathologies of the ankle complex, SPIE Proceedings 5369:722-729, 2004.
Zhuge, Y., Udupa, J.K., Nyul, L.G., Multiple sclerosis lesion quantification in MR images by using vectorial scale-based fuzzy connectedness, SPIE Proceeding, 5370(3):1764-1773, 2004.
Grevera, G.J., Udupa, J.K., GMIP-generalized maximum intensity projection, SPIE Proceedings 5367:636-645, 2004.
Lei, T., Udupa, J.K., Evaluation of image analysis methods without requiring ground truth or gold standard, SPIE Proceeding, 5372:154-164, 2004.
Udupa, J.K., Zhuge, Y., Delineation operating characteristic (DOC) curve for assessing the accuracy behavior of image segmentation algorithms, SPIE Proceedings, 5370(1):640-647, 2004.
Madabhushi, A., Udupa, J.K., Souza, A., Generalized scale: Theory, algorithms, and application to image inhomogeneity correction, SPIE Proceedings, 5370(2):765-776, 2004.
Grevera, G.J., Udupa, J.K., Odhner, D.: T-shell rendering and manipulation, SPIE Proceedings 5744(1):22-33, 2005.
Souza, A., Udupa, J.K., Madabhushi, A.: Generalized scale-based image filtering, SPIE Proceedings 5747(2):732-742, 2005.
Madabhushi, A., Udupa, J.K.: New methods of MR image intensity standardization via generalized scale, SPIE Proceedings  5747(2):1143-1154, 2005.
Lei, T., Udupa, J.K.: A new look at Markov random field (MRF) model-based MR image analysis, SPIE Proceedings 5747(2):1317-1328, 2005.
Souza, A., Udupa, J.K.: Automatic landmark selection for active shape models, SPIE Proceedings 5747:1377-1383, 2005.
Madabhushi, A., Udupa, J.K., Souza, A.: Generalized ball-scale: Theory, algorithms, and application to image inhomogeneity correction, SPIE Proceedings 5747(3):1509-1520, 2005.
Liu, J., Udupa, J.K., Saha, P.K., Odhner, D., Hirsch, B.E., Siegler, S., Simon, S., Winkelstein, B.A.: Model-based 3D segmentation of the bones of joints in medical images, SPIE Proceedings 5747(3):1793-1803, 2005.
Lei, T., Udupa, J.K., Moonis, G., Balcer, L.: Hierarchical brain tissue segmentation and its application in Alzheimer’s disease (AD) and multiple sclerosis (MS), SPIE Proceedings 5746:592-603, 2005.
Lei, T., Udupa, J. K., Odhner, D., Mishra, S., Wu, G., Schwartz, E., Iwanaga, I., Desiderio, L. and Balcer, L.: A methodology to study multiple sclerosis (MS) based on distribution of standardized intensities in segmented tissue regions, SPIE Proceedings 6143:285-296, 2006.
Ying, Z. and Udupa, J.K.: An intensity standardization-based method for image inhomogeneity correction in MRI, SPIE Proceedings 6143:658-668, 2006.
Liu, J. and Udupa, J.K.: Oriented active shape models, SPIE Proceedings 6144:30-40, 2006.
Souza, A. and Udupa, J.K.: Iterative live wire and live snake:  New user-steered 3D image segmentation paradigms, SPIE Proceedings 6144:1159-1165, 2006.
Lim, S.-J., Udupa, J.K., Jeong, Y.-Y., Ho, Y.-S. and Torigian, D.A.: A new general method of 3D model generation for active shape image segmentation, SPIE Proceedings 6144:1381-1388 ,2006
Lei, T.: Description of statistical theory of magnetic resonance imaging, SPIE Proceedings 6142:231-242, 2006.

Technical Reports: (no overlap with other categories)

(2)    Murthy, I.S.N., Prabhu, K.S., Udupa, J.K., Goel, A.K., The arrhythmia guard system, ARGUS - computer software for automatic ECG rhythm monitoring, Technical Report, Department of Electrical Engineering, Indian Institute of Science, Bangalore, July 1978 (61 pages).
Udupa, J.K., Display - A system of programs for two- and three-dimensional display of medical objects from CT data, Technical Report MIPG41, Medical Image Processing Group, Department of Computer Science, SUNY/Buffalo, Buffalo, New York, 1980 (112 pages).
Udupa, J.K., DISPLAY82 - A system of programs for the display of 3D information in CT data, Technical Report MIPG67, Medical Image Processing Group, Department of Radiology, University of Pennsylvania, Philadelphia, April 1983 (205 pages).
(0)    Udupa, J.K., Raya, S.P., 3DVIEWNIX - A software system for medical 3D imaging: a preliminary design and user interface specification, Technical Report MIPG131, Medical Image Processing Group, Department of Radiology, University of Pennsylvania, Philadelphia, July 1988 (101 pages).
(0)    Chuang, K.S., Udupa, J.K., Raya, S.P., High-quality rendition of discrete three-dimensional surfaces, Technical Report MIPG130, Medical Image Processing Group, Department of Radiology, University of Pennsylvania, Philadelphia, July 1988 (25 pages).
(0)    Udupa, J.K., Hung, H.M., Odhner, D., Goncalves, R., The 3DVIEWNIX Software System, Data Format Specification: A Multidimensional Extension to the ACR-NEMA Standards, Version 1.0, Technical Report MIPG177, Medical Image processing Group, Department of Radiology, University of Pennsylvania, Philadelphia, January 1991 (38 pages).
(0)    Hung, H.M., Udupa, J.K., Odhner, D., The 3DVIEWNIX Software System, Data-, graphics-, and process-interface functions - Version 1.0, Technical Report, MIPG178, Medical Image processing Group, Department of Radiology, University of Pennsylvania, Philadelphia, January 1991 (161 pages).
Udupa, J.K., Odhner, D., Samarasekera, S., and Goncalves, R., The 3DVIEWNIX Software System: Data Format Specification: A Generalization of the ACR-NEMA Standards to Multidimensional Data, Technical Report MIPG202, Medical Image Processing Group, Department of Radiology, University of Pennsylvania, Philadelphia, Pennsylvania, September 1993, (70 pages).
(0)    Udupa, J.K., Odhner, D., Samarasekera, S., Goncalves, R.J., Iyer, K., Sharma, S., Venugopal, K.P. and Furuie, S., The 3DVIEWNIX Software System, User Manual, Version 1.0, Technical Report MIPG203, Medical Image Processing Group, Department of Radiology, University of Pennsylvania, Philadelphia, Pennsylvania, October 1993, (316 pages).
(0)    Udupa, J.K., Odhner, D., Samarasekera, S., Iyer, K. Falcao, A., The 3DVIEWNIX Software System, User Manual, Version 1.1, Technical Report MIPG215, Medical Image Processing Group, Department of Radiology, University of Pennsylvania, 1995, (350 pages).
(1)    Iyer, K., Udupa, J.K., Odhner, D., Samarasekera, S., Hung, H.M., The 3DVIEWNIX Software System, The Library Reference Manual, Version 1.1, Technical Report MIPG214, Medical Image Processing Group, Department of Radiology, University of Pennsylvania, 1995, (221 pages).