Journal articles

  1. Staub D and Murphy MJ, A digitally-reconstructed radiograph algorithm calculated from first principles, Medical Physics 40 (1), 11902.1 - 11902.15, 2013.
  2. Zhang C, Christensen GE, Kurtek S, Srivastava A, Murphy MJ, Weiss E, Bai E, Williamson JF, SUPIR: Surface uncertainty-penalized, non-rigid image registration for pelvic CT imaging, Biomedical Image Registration, Lecture Notes in Computer Science 7359/2012, 236-245, 2012.
  3. Murphy MJ, Salguero FJ, Siebers JV, Staub D, Vaman C, A method to estimate the effect of deformable image registration uncertainties on daily dose mapping, Medical Physics 39 (2), 573 - 580, 2012.
  4. S J Lee, Y Motai, and M Murphy, Respiratory motion estimation with hybrid implementation of extended Kalman filter, IEEE Transactions on Industrial Electronics 59 (11), 4421 - 4432, 2012.
  5. Staub D, Docef A, C Vaman, Murphy MJ, 4DCBCT reconstruction using a PCA motion model, Medical Physics 38(12), 6697 - 6709, 2011.
  6. Jacobson T and Murphy MJ, Optimized knot placement for B-splines in Deformable Image Registration, Medical Physics 38(8): 4579 - 4582, 2011.
  7. Pokhrel D, Murphy MJ, Todor DA, Weiss E, Williamson JF, Localizing intracavitary brachytherapy applicators from cone-beam CT x-ray projections via a novel iterative forward projection matching method, Medical Physics 38 (2), 1070 - 1080, 2011.
  8. Pokhrel D, Murphy MJ, Todor DA, Weiss E, Williamson JF, Reconstruction of brachytherapy seed positions and orientations from cone-beam CT x-ray projections via a novel iterative forward projection matching method, Medical Physics 38 (1): 474 - 486, 2011.
  9. Dogan N, Wu J, Song S, and Murphy MJ, Comparisons of multiple anatomy-based rigid registration methods for patient setup before external beam radiation therapy in the head and neck, Journal of Applied Clinical Medical Physics 12 (1), 76 - 85, 2011.
  10. Wu J and Murphy MJ, A neural network based 3D/3D image registration quality evaluator for patient setup in the absence of a ground truth, Med Phys 37 (11): 5756 - 5764, 2010.
  11. Brock RS, Docef A, Murphy MJ, Reconstruction of a cone-beam CT image via forward iterative projection matching, Med Phys 37 (12): 6212 - 6220, 2010.
  12. Pokhrel D, Murphy MJ, Todor D, Weiss E, Williamson JF, Clinical application and validation of an iterative forward projection matching algorithm for permanent brachytherapy seed localization from conebeam-CT x-ray projections, Med Phys 37 (9), 5092 - 5101, 2010.
  13. Vaman C, Staub D, Williamson J, Murphy MJ, A method to map errors in the deformable registration of 4DCT images, Med Phys 37 (11): 5765 - 5776, 2010.
  14. Wu J and Murphy MJ, Assessing the intrinsic accuracy of 3D/3D rigid image registration results for patient setup in the absence of a ground truth, Med Phys 37 (6): 2501- 2508, 2010.
  15. Yan C, H Zhong, Murphy M, Weiss E, Siebers JV, A pseudo inverse deformation vector field generator and its applications, Medical Physics 37 (3), 1117 -1128, 2010.
  16. Wu J, Murphy MJ, Weiss E, Sleeman WC, Williamson JF, Development of a population-based model of surface segmentation uncertainties for uncertainty-weighted deformable image registrations, Medical Physics 37 (2), 607 - 614, 2010.
  17. Murphy MJ and Pokhrel D, Optimization and evaluation of an adaptive neural network filter to predict respiratory motion, Medical Physics 36 (1): 40 -47, 2009.
  18. Murphy MJ, Intra-fraction geometric uncertainties in frameless image-guided radiosurgery, Int J Rad Onc Biol Phys 73 (5): 1364 - 1368, 2009.
  19. Murphy MJ and Pokhrel D, Optimization and evaluation of an adaptive neural network filter to predict respiratory motion, Medical Physics 36 (1): 40 - 47, 2009.
  20. Murphy MJ, Using neural networks to predict breathing motion during radiation therapy, Seventh International Congress on Machine Learning Applications (ICMLA 2008), 528 - 532, 2008.
  21. George R, Suh Y, Murphy M, Williamson J, Weiss E, Deall P, On the accuracy of a moving average algorithm for target tracking during radiation therapy treatment delivery, Med Phys 35 (6): 2356 – 2365, 2008.
  22. Dieterich S, Cleary K, D'Souza W, Murphy MJ, Wong KH, Keall P, Locating and targeting moving tumors with radiation beams, Med Phys 35 (12), 5684 - 5694, 2008.
  23. Murphy MJ, Eidens R, Vertatschitsch E, Wright N, The effects of transponder movement on the accuracy of the Calypso electromagnetic localization system, Int J Rad Onc Biol Phys 72 (1), 295 – 299, 2008. PDF
  24. Docef A and Murphy MJ, Reconstruction of a deformed 4D CT for moving anatomy, Int J CARS 3: 591 - 598, 2008.
  25. Murphy MJ, Wei Z, Fatyga M, Williamson J, Anscher M, Wallace T, and Weiss E, The effects of image noise on automatic contour generation via deformable image registration, Medical Physics 35(3): 1145 – 1153, 2008. PDF
  26. Murphy MJ, Response to comments by Verellen, Soete, Erbe, and Labsik on the question of how to make rigid-body setup corrections in radiotherapy, Medical Physics 34(10): 4066 – 4067, 2007.
  27. Murphy MJ et al, The management of imaging dose during image-guided radiotherapy, Report of the AAPM Task Group 75, Medical Physics 34(10): 4041 – 4063, 2007. PDF
  28. Murphy MJ, Wei ZP, Fatyga M, Sensitivity of parametric deformable image registration to image noise, International Journal of Computer-Assisted Radiology and Surgery 2, S52 – S53, 2007.
  29. Murphy MJ, Image-guided motion adaptation in radiation therapy, Proceedings of the 4th IEEE International Symposium on Biomedical Imaging, 996 – 999, April 2007.
  30. Murphy MJ, Image-guided patient positioning: If one cannot correct for rotational errors in external-beam radiotherapy setup, should the rotations be measured? Medical Physics 34 (6): 1880 – 1883, 2007. PDF
  31. Murphy MJ, Lin P-S, and Ozhasoglu C, Intra-fraction dose delivery timing during IMRT and radiosurgery can potentially influence the radiobiological effect, Medical Physics 34(2): 481 – 484, 2007. PDF
  32. Keall PJ, Mageras GS, Balter JM, Emery RS, Forster KM, Jiang SB, Kapatoes JM, Low DA, Murphy MJ, Murray BR, Ramsey CR, Van Herk MB, Vedam SS, Wong JW, and Yorke E, The management of respiratory motion in radiation oncology report of AAPM Task Group 76, Med Phys 33: 3874 – 3900, 2006.
  33. Murphy MJ and Dieterich S, Comparative performance of linear and nonlinear neural networks to predict irregular breathing, Phys Med Biol 51, 5903 – 5914, 2006. PDF
  34. Keall PJ, Cattell H, Pokhrel D, Dieterich S, Wong K, Murphy MJ, Vedam SS, Wijesooriya K, Mohan R, Geometric accuracy of a system for real time target tracking with a dynamic MLC, Int J Rad Onc Biol Phys 65 (5): 1579 – 1584, 2006.
  35. Docef A, Murphy M, Keall P, Siebers J, Williamson J, Forward CT reconstruction from limited projection data, Proceedings of the 19th Conference on Computer-Assisted Radiology and Surgery, 104 – 108, 2005.
  36. Vedam S, Docef A, Fix M, Murphy M, Keall P, Dosimetric impact of geometric errors due to respiratory motion prediction on dynamic multileaf collimator based 4D radiation delivery, Medical Physics 32 (6): 1607 – 1620, 2005.
  37. Murphy MJ and Todor DA, Demonstration of a forward iterative method to reconstruct brachytherapy seed configurations from x-ray projection images, Physics in Medicine and Biology 50: 2715 – 2737, 2005. PDF
  38. Isaksson M, Jalden J, and Murphy MJ, On using an adaptive neural network to predict lung tumor motion during respiration for radiotherapy applications, Med Phys 32 (12), 3801 – 3809, 2005.
  39. Murphy MJ, Tracking moving organs in real time, Seminars in Radiation Oncology, Chen and Bortfield editors, Vol 14 (1), 91 – 100, 2004. PDF

Book chapters

  1. Murphy MJ, Kilovoltage radiography for robotic linac IGRT, in Image-guided Radiation Therapy, ed Bourland D, Taylor and Francis 2012.
  2. Murphy MJ and Li T-F, Introduction to Image-guided and Adaptive Radiotherapy, in Image-guided Radiotherapy, ed Timmerman R and Xing L Lippincott, Williams, and Williams, 2009.
  3. Anscher M, Murphy MJ, Wiesmeyer M, et al, On-line dosimetric verification with fiducial dosimeter planning and verification, in Prostate Cancer: Principles and Practices of Image-guided Radiation Therapy, ed Valicenti, Dicker, and Jaffrey (in press 2008).
  4. Shepard D, Murphy MJ, and Yu C, Radiosurgery treatment planning, in Principles and Practice of Stereotactic Radiosurgery, ed Chin and Regine, Springer 2008.
  5. Ma L and Murphy MJ, Designing, Building and Installing a Stereotactic Radiosurgery Unit, in Principles and Practice of Stereotactic Radiosurgery, ed Chin and Regine, Springer 2008.
  6. Murphy MJ and Jianyue Jin, Patient immobilization and movement, in Spine Radiosurgery, ed S Ryu and P Gertzsen, Thieme Medical Publishers 2009.
  7. Murphy MJ, The Management of Imaging Dose during Radiotherapy, in Integrating new technologies into the clinic: Monte Carlo and Image-guided radiation therapy, ed Curran BH, Balter JM, and Chetty IJ, Medical Physics Publishing 2006.
  8. Murphy MJ, Fluoroscopy during Image-guided Radiotherapy, in Integrating new technologies into the clinic: Monte Carlo and Image-guided radiation therapy, ed Curran BH, Balter JM, and Chetty IJ, Medical Physics Publishing 2006.
  9. Keall PJ, Vedam S, and Murphy MJ, Integration of position-monitoring and targeted radiotherapy control systems, in Integrating new technologies into the clinic: Monte Carlo and Image-guided radiation therapy, ed Curran BH, Balter JM, and Chetty IJ, Medical Physics Publishing 2006.
  10. Murphy MJ, CyberKnife Image Guidance and Tracking, in CyberKnife Radiosurgery: A Practical Guide, ed Heilbrun MP, Sunnyvale: The CyberKnife Society 2003. The future of non-invasive neurosurgery using focused radiation, in The Operating Room of the 21st Century, edited by MLJ Apuzzo, Illinois: AANS publications, 2003.
  11. Chang, S.D., Murphy, M.J., Martin, D.P., Adler, J.R.: Frameless Stereotactic Radiosurgery, in Medical Radiology. Diagnostic Imaging and Radiation Oncology, edited by Petrovich, Z., Brady, L.W., Apuzzo, M.L., Bamberg, M., Springer-Verlag: Berlin/Heidelberg 2001. 
  12. Chang SD, Murphy MJ, Tombropolous R, and Adler J, Robotic Radiosurgery, in Advanced Neurosurgical Navigation, Eben Alexander and Robert Maciunas, editors, New York: Thieme Medical Publishers, 1999.
  13. Chang SD, Murphy MJ, Doty JR, Adler JR, Stereotactic Radiosurgery: New Innovations, Perspectives in Neurological Surgery, ed. W.S.Fisher III, Baltimore: Williams and Wilkins, 1999.
  14. Chang SD, Murphy MJ, Doty JR, Hancock S, Adler JR Image guided robotic radiosurgery: clinical and radiographic results with the Cyberknife, in Radiosurgery, edited by D.Dondziola, New York: Karger Medical and Scientific Publishers, 1999 .
  15. Chang SD, Adler JR, Murphy MJ, Stereotactic Radiosurgery of Spinal Lesions, in Advanced Techniques in Central Nervous System Metastasis, Robert Maciunas, editor, American Association of Neurological Surgeons, 1998.
  16. Murphy MJ, Real-time Imaging for Patient Position Alignment and Tracking, in Imaging in Radiotherapy, edited by Hazle and Boyer, Medical Physics Publishing, 1998.
  17. Adler, JR, Schweikard A, Murphy MJ, and Hancock S, Image-guided Stereotactic Radiosurgery: The Cyberknife, in Image-Guided Neurosurgery: Clinical Applications of Surgical Navigation, G. Barnett, D. Roberts, R.Maciunas, editors. Quality Medical Publishing, Inc, 1998.
  18. Murphy MJ, A Six-degree-of-freedom Image Registration Algorithm for Image-guided Frameless Stereotactic Radiosurgery, Yearbook of Medical Informatics, J.J.Bemmels editor, Stuttgart: Schatthauer, 1998.

Books

  • Murphy MJ, editor, Motion Adaptation in Radiation Therapy, Taylor and Francis, 2012.
  • I El Naqa, R Li, and MJ Murphy, editors, Applications of Machine Learning in Radiation Therapy, Springer, 2015.