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C. Johnson, H. Cheung, R Martino, S. Bailey, D. Russ, A. Fletcher, B. Trus, "IRPgrid:  A Feasibility Study of Grid Technologies for the NIH Intramural Research Program"   [Abstract] Presentation

Daniel E. Russ, Faye C. Austin, Carl A. Roth, Calvin A. Johnson, "Primary Assessment of High-Risk High-Reward Research at NIH Using Context-Sensitive Text Mining"NIH Research Festival  2009.   Presentation

Lau W, Shum L, Johnson C "Salivary Proteome Wiki: A Collaborative Environment to Share and Annotate Proteomics Data." Clinical Proteomics (Proc. of 8th Human Proteome Organisation Congress). 5(Suppl. 1): 13, Sept, 2009   [Full Article]

Christopher D Dharmaraj, Anthony R Fletcher, Phuc N Doan, Nallathamby Devasahayam, Shingo Matsumato, Calvin Johnson, John A. Cook, James B. Mitchell, Sankaran Subramanian, Murali C Krishna "Reconstruction for Time-Domain In-Vivo EPR 3-D Multi-Gradient Oximetric Imaging - A Parallel Processing Perspective, " International Journal of Biomedical Imaging, vol. 2009, Article ID 528639, 2009. doi:10.1155/2009/528639   [Abstract] [Full Article]

Johnson C., Lau W., Bhandari A., and Hays T. , A Best-Fit Model for Concept Vectors in Biomedical Research Grants, Proc. AMIA Symp. 2008: 993.   [Abstract] [Full Article]

D. E. Russ, F. C. Austin, G. Sun, W. Lau, C. A. Johnson "Context-Dependent Text Mining for the Retrospective Identification of High-Risk, High-Reward Research", Poster 2008 NIH Research Festival   DCB Technical Report

Leitner F, Krallinger M, Rodriguez-Penagos C, Hakenberg J, Plake C, Kuo CJ, Hsu CN, Tasi RTH , Hung HC, Lau WW, Johnson CA, Stre R, Yoshida K, Kim S, Shin SY, Zhang BT, Baumgartner WA, Hunter L, Haddow B, Matthews M, Wang X, Ruch P, Ehrler F, Ozguro A, Erkan G, Radev DR, Krauthammer M, Luong TB, Hoffmann R, Sander C, and Valencia A "Introducing Meta-Services for Biomedical Information Extraction." Genome Biology. 9(S2):S6, 2008    [Abstract] [Full Article]

Cheung H., Wang A., Fann Y., Upender B., Chinatala S., Frazin A., Nie W., Martino R.L., and Johnson C. "A Web-Based, Meta-Data Driven, Clinical Research Platform for Managing Multiple Clinical Research Studies," Proceedings of the American Medical Informatics Association (AMIA) 2007 Annual Symposium, November, 2007, Chicago, IL, M-054   [Abstract] [Full Article]

M. Rodriguez, J.-S. Liow, S. Thada, M. Sibomana, S. Chelikani, T. Mulnix, C.A. Johnson, C. Michel, W.C. Barker, and R.E. Carson, "Count-Rate Dependent Component-Based Normalization for the HRRT", IEEE Transaction on Nuclear Science, vol. 54, no. 3, pp. 486-495 (2007).   [Abstract] [Full Article]

Lau, William W., Becker, Kevin G., and Johnson, Calvin A., "Rule-based Human Gene Normalization in Biomedical Text with Confidence Estimation", LSS Computational Systems Bioinformatics, San Diego, August, 2007, pp. 371-379.   [Abstract]  [PubMed]

Lau WW, Johnson CA, "Rule-based Gene Normalization with Statistical and Heuristic Confidence Measure", Proceedings of the Second  BioCreative Challenge Evaluation Workshop, Madrid, Spain, 2007, pp. 165 - 167.   [Abstract] [Full Article]

Sankaran Subramanian, Calvin A. Johnson, Nallathamby Devasahayam, Ken-ichiro Matsumoto1, Fuminori Hyodo, John Cook, and Murali C. Krishna. "In Vivo Spectal-Spatial Imaging for Ocygen Mapping Using Single-Point, Time-Domain Electron Paramagnetic Resonance," Proceedings, the 2006 IEEE International Symposium on Biomedical Imaging, Crystal City, VA, 2006.

Martino, R.L., Russ, D.E., and Johnson, C.A., "Parallel Computing in the Analysis of Gene Expression Relationships." Chapter 11 in: A.Y. Zomaya, editor, Parallel Computing Bioinformatics, New York, N.Y.: Wiley, pp. 265-284.   [Abstract]

Shaohua A Wang, Yang Fann, Huey Cheung, Frank Pecjak, Barg Upender, Adam Frazin, Raj Lingam, Sarada Chintala, Gladys Wang, Marc Kellogg, Robert L. Martino, and Calvin A. Johnson"Performance of Using Oracle XMLDB in the Evaluation of CDISC ODM for a Clinical Study Informatics System." Proceedings 17th IEEE Symposium on Computer-Based Medical Systems 24-25 June 2004,  Bethesda, MD; 594-599   [full article pdf]

Huey Cheung, Yang Fann, Shaohua A. Wang, Barg Upender, Adam Frazin, Raj Lingam, Sarada Chintala, Frank Pecjak, Gladys Wang, Marc Kellogg, Robert L. Martino, and Calvin Johnson"A Web-Based Protocol Tracking Management System For Clinical Research. " 17th IEEE Symposium on Computer Based Medical Systems 24-25 June 2004, Bethesda, MD; 72-77   [full article pdf]

Johnson CA, Shanthalaxmi Thada, Yongsheng Zhao, Anthony R. Iano-Fletcher, Jeih San Liow, W. Craig Barker, Robert L. Martino, and Richard E. Carson "Software achitecture of the MOLAR-HRRT reconstruction engine." IEEE Nuclear Science Symposium and Medical Imaging Conference Rome, Italy, 2004

Barker WC, Liow J-S, Zhao Y, Thada S, Iano-Fletcher A, Lenox M, Michel C, Johnson CA, Carson RE "Randoms estimation for list-mode reconstruction for the ECAT HRRT." IEEE Nuclear Science Symposium and Medical Imaging Conference Rome, Italy, 2004

Liow J-S, Chen M., Barker W.C., Zhao Y., Thada S.,Iano-Fletcher A.R., Lenox M., Michel C., Johnson C.A., Innis R.B, Carson R.E. "Component-based normalization for the ECAT HRRT." IEEE Nuclear Science Symposium and Medical Imaging Conference Rome, Italy, 2004

Carson RE, Barker WC, Liow J-S, Adler S, Johnson CA "Design of a motion-compensation OSEM List-mode Algorithm for Resolution-Recovery Reconstruction of the HRRT." Conf. Record of the IEEE Nuclear Science Symposium and Medical Imaging Conference Portland, OR, 2003, M16-6.

Johnson CA, Cook JA, McGarry DP, Devasahayam N, Mitchell JB, Subramanian S, Krishna M "Maximim Entropy Reconstruction Methods in Electron Paramagnetic Resonance Imaging." Annals of Operations Research 119 (1-4): 101-118

Seidel J, Vacquero JJ, Pascua J, Desco M, Johnson CA, Green M "Features of the NIH ATLAS Small Animal PET Scanner and Its Use with a Coaxial Small Animal Volume CT Scanner." IEEE International Symposium on Biomedical Imaging Washington, DC, 2002:TP-P1.9

Johnson CA, Seidel J, Vaquero JJ, Pascau J, Desco M, Green MV "Exact Positioning for OSEM Reconstructions on the ATLAS Depth-of-Interaction Small Animal Scanner." Academy of Molecular Imaging Annual Conference 2002 San Diego, CA

Green M, Seidel J, Johnson CA, Vaquero JJ, Pascua J, Desco M "Towards High Performance Small Animal Positron Emission Tomography." IEEE International Symposium on Biomedical Imaging Washington, DC, 2002 TA-SS-1.3

McGarry DP, Cook J, Subramanian S, Devasahayam N, Cherukuri MK, Johnson CA. "Reconstruction of electron paramagnetic resonance images using iterative methods" Proc. SPIE 4322:24-29, Medical Imaging 2001: Image Processing, Milan Sonka; Kenneth M. Hanson; Eds

Johnson CA, McGarry D, Cook JA, Subramanian S, Devasahayam N, Mitchell JM, Krishna MC "Maximum entropy reconstruction methods in electron paramagnetic resonance imaging." Annals of Operations Research

Yao R, Seidel J, Johnson CA, Daube-Witherspoon DE, Green MV, Carson RE "Performance Characteristics of the 3D OSEM Algorithm in the Reconstruction of Small Animal PET Images." IEEE Transactions on Medical Imaging 19: 798-804   [PubMed]

Johnson CA, Sofer A.  "A primal-dual method for large-scale image reconstruction in emission tomography." SIAM Journal on Optimization 11: 691-715

Johnson CA, Seidel J, and Sofer A. "Interior-point methodology for 3-D PET reconstruction." IEEE Transactions on Medical Imaging, 19: 271-285   [PubMed]

Johnson CA, Sofer A."A Data-Parallel Algorithm for Tomographic Image Recontruction" Proceedings of the 7th Symposium on the Frontiers of Massively Parallel Computation IEEE Computer Society Press, 126-137 Washington   [full article pdf]

Yao R, Seidel J, Johnson CA, Daube-Witherspoon DE, Green MV, Carson RE "Factors Affecting the Performance of the 3D OSEM Algorithm in the Reconstruction of Small Animal PET Images." the 45th Annual Meeting of the Society of Nuclear Medicine Los Angeles, June

Swalwell J, Emmert-Buck M, Pfeifer J, Johnson C, Wetzel A, Becich M "Cancer Genome Anatomy Project: an Integrated Web Site for Molecular Profiling of Cancer" The Fourth Annual Conference on Anatomic Pathology Informatics, Imaging and the Interent

Martino RL, Johnson CA, Kempner KM, Pohida TJ, Powell JI, Suh EB, Trus BL, Yap TK "Providing Computational Science and Engineering Expertise for a Large Biomedical Research Program." The First Joint Meeting of the Biomedical Engineering Society and the IEEE Engineering in Medicine and Biology Society Atlanta, Georgia, October 1999

Yao R, Johnson CA, Bacharach SL, Daube-Witherspoon ME. "Attenuation Correction and Iterative Reconstruction for PET." The Journal of Nuclear Medicine 39: 179P

Martino RL, Kempner KM, Johnson CA. "Information technology applications in biomedical research." Proceedings of the IEEE International Conference on Information Technology Applications in Biomedicine 28-34

Lanczycki CJ, Johnson CA, Trus BL, Conway JF, Steven AC, Martino RL "Parallel computing applications for the structural biology of viruses." IEEE Computational Science and Engineering 5:76-9

Johnson CA, Seidel J, Carson RE, Gandler WR, Sofer A, Green MV, Daube-Witherspoon ME. "Evaluation of 3D Reconstruction Algorithms for a Small Animal PET Camera" IEEE Transactions on Nuclear Science 44   [full article pdf]

Johnson CA, Sofer A. "Interior Point Methodology for Large Scale Regularized Maximum Likelihood Reconstruction in Emission Tomography" presentation to the University of Pennsylvania Medical Imaging Group July   [full article pdf]

Seidel J, Johnson C, Jagoda E, Sha L, Eckelman WC, Green MV. "A high resolution scanner for investigating technical requirements and selected biological applications in small animal PET" The Journal of Nuclear Medicine 38: 44P

Seidel J, Johnson C, Jagoda E, Sha L, Eckelman WC, Green MV. "A High Resolution PET Scanner for Investigating Technical Requirements and Selected Biological Applications of Continuous 3-D Detectors in Small Animal Imaging." Journal of Nuclear Medicine 38: 44P

Kempner KM, Chow D, Choyke P, Cox Jr JR, Johnson CA, Okunieff P, Ostrow H, Pfeifer JC, Martino RL. "The development of an ATM-based Radiology Consultation WorkStation for radiotherapy treatment planning" SPIE Medical Imaging 1997 Conference Proceedings 3031: 500-11

Johnson CA, Sofer A. "Interior Point Methods for Volume PET Reconstruction." Proceedings of the International Symposium on Mathematical Programming, 19

Johnson CA, Seidel J, Carson RE, Gandler WR, Sofer A, Green MV, Daube-Witherspoon ME. "Evaluation of 3D Reconstruction Algorithms for a Small Animal PET Camera" IEEE Transactions on Nuclear Science 44: 1303-8

Johnson CA, Seidel J, Carson RE, Gandler WR, Sofer A, Green MV, Daube-Witherspoon ME. "Evaluation of 3D Reconstruction Algorithms for a Small Animal PET Camera." '96 IEEE Nuclear Science Symposium Conference Record Alberto Del Guerra, 1481-1485

Sofer A, Johnson CA, and Nash SG. "Nonlinear optimization of the iterative 3-D reconstruction problem" INFORMS Atlanta Fall 1996 Meeting

Johnson CA, Nash SG, Sofer A, Carson RE, Daube-Witherspoon ME. "Optimization for iterative 3D PET reconstructions." Fifth SIAM Conference on Optimization 70

Johnson CA, Yan Y, Carson RE, Martino RL, Daube-Witherspoon ME. "A system for the 3D reconstruction of retracted-septa PET data using the EM algorithm." IEEE Transactions on Nuclear Science 42: 1223-1227   [full article pdf]

Johnson CA, Yan Y, Carson RE, Martino RL, Daube-Witherspoon ME. "A system for the 3D reconstruction of retracted-septa PET data using the EM algorithm." Conference Record of the '94 IEEE Nuclear Science Symposium and Medical Imaging Conference Trendler RC, Norfolk, VA, IEEE Press: 1325-9

Martino RL, Johnson CA, Suh EB, Trus BL, Yap TK. "The role of high performance parallel computing in biological research." Proceedings of the 16th Annual Conference of the IEEE Engineering in Medicine and Biology Society Editor: Sheppard NF, Eden M, Kantor G. Baltimore, IEEE Computer Society Press,16: 1386-7

Martino RL, Johnson CA, Suh EB, Trus BL, Yap TK "Parallel computing in biomedical research." Science 265:902-8   [PubMed]

Johnson CA, Weisenfeld NI, Trus BL, Conway JF, Martino RL, Steven AC "Orientation determination in the 3-D reconstruction of icosahedral viruses using a parallel computer." Proceedings of Supercomputing 1994 902-8

Martino RL, Johnson CA, Trus BL, Yap TK, Suh EB, Pfeifer JC, Brooks RB "Highly Parallel Computing at the National Institutes of Health." Proceedings of Supercomputing USA/Pacific 91