Darin Clark
Assistant Professor in Radiology
Current Appointments & Affiliations
- Assistant Professor in Radiology, Radiology, Clinical Science Departments 2022
Contact Information
- 311 Research Drive, Bryan Research Building Room 156, Durham, NC 27710
- DUMC Box 3302, Durham, NC 27710
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darin.clark@duke.edu
(919) 684-0947
- Background
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Education, Training, & Certifications
- Ph.D., Duke University 2015
- Research
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Selected Grants
- Simulation Tools for 3D and 4D CT and Dosimetry awarded by National Institutes of Health 2007 - 2024
- Cardiac photon counting CT and its application in studying interactions between Alzheimer's and heart disease awarded by National Institutes of Health 2021 - 2024
- Development of a New Generation Micro-CT imaging for Functional and Molecular Imaging of Cancer awarded by National Institutes of Health 2015 - 2022
- Publications & Artistic Works
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Selected Publications
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Academic Articles
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Nadkarni, Rohan, Alex Allphin, Darin P. Clark, and Cristian T. Badea. “Material decomposition from photon-counting CT using a convolutional neural network and energy-integrating CT training labels.” Phys Med Biol 67, no. 15 (July 18, 2022). https://doi.org/10.1088/1361-6560/ac7d34.Full Text Open Access Copy Link to Item
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Allphin, Alex J., Yvonne M. Mowery, Kyle J. Lafata, Darin P. Clark, Alex M. Bassil, Rico Castillo, Diana Odhiambo, Matthew D. Holbrook, Ketan B. Ghaghada, and Cristian T. Badea. “Photon Counting CT and Radiomic Analysis Enables Differentiation of Tumors Based on Lymphocyte Burden.” Tomography 8, no. 2 (March 10, 2022): 740–53. https://doi.org/10.3390/tomography8020061.Full Text Open Access Copy Link to Item
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Holbrook, Matthew D., Darin P. Clark, Rutulkumar Patel, Yi Qi, Alex M. Bassil, Yvonne M. Mowery, and Cristian T. Badea. “Detection of Lung Nodules in Micro-CT Imaging Using Deep Learning.” Tomography 7, no. 3 (August 7, 2021): 358–72. https://doi.org/10.3390/tomography7030032.Full Text Open Access Copy Link to Item
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Clark, D. P., and C. T. Badea. “Advances in micro-CT imaging of small animals.” Phys Med 88 (August 2021): 175–92. https://doi.org/10.1016/j.ejmp.2021.07.005.Full Text Open Access Copy Link to Item
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Schwartz, Fides R., Darin P. Clark, Yuqin Ding, Juan Carlos Ramirez-Giraldo, Cristian T. Badea, and Daniele Marin. “Evaluating renal lesions using deep-learning based extension of dual-energy FoV in dual-source CT-A retrospective pilot study.” European Journal of Radiology 139 (June 2021): 109734. https://doi.org/10.1016/j.ejrad.2021.109734.Full Text Open Access Copy
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Holbrook, M. D., D. P. Clark, and C. T. Badea. “Dual source hybrid spectral micro-CT using an energy-integrating and a photon-counting detector.” Phys Med Biol 65, no. 20 (October 21, 2020): 205012. https://doi.org/10.1088/1361-6560/aba8b2.Full Text Open Access Copy Link to Item
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Clark, Darin P., Fides R. Schwartz, Daniele Marin, Juan C. Ramirez-Giraldo, and Cristian T. Badea. “Deep learning based spectral extrapolation for dual-source, dual-energy x-ray computed tomography.” Med Phys 47, no. 9 (September 2020): 4150–63. https://doi.org/10.1002/mp.14324.Full Text Open Access Copy Link to Item
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Ding, Yifu, Daniel J. Vanselow, Maksim A. Yakovlev, Spencer R. Katz, Alex Y. Lin, Darin P. Clark, Phillip Vargas, et al. “Computational 3D histological phenotyping of whole zebrafish by X-ray histotomography.” Elife 8 (May 7, 2019). https://doi.org/10.7554/eLife.44898.Full Text Link to Item
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Donaldson, Keri, Jeanine M. Buchanich, Patricia Sue Grigson, Erin Deneke, Kent E. Vrana, David B. Sacks, Gregory J. Kuehn, et al. “Abstracts of Presentations at the Association of Clinical Scientists 139th Meeting Hershey, PA, May 15-18, 2019.” Ann Clin Lab Sci 49, no. 3 (May 2019): 403–16.Link to Item
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Badea, C. T., D. P. Clark, M. Holbrook, M. Srivastava, Y. Mowery, and K. B. Ghaghada. “Functional imaging of tumor vasculature using iodine and gadolinium-based nanoparticle contrast agents: a comparison of spectral micro-CT using energy integrating and photon counting detectors.” Phys Med Biol 64, no. 6 (March 12, 2019): 065007. https://doi.org/10.1088/1361-6560/ab03e2.Full Text Open Access Copy Link to Item
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Clark, Darin P., Matthew Holbrook, Chang-Lung Lee, and Cristian T. Badea. “Photon-counting cine-cardiac CT in the mouse.” Plos One 14, no. 9 (2019): e0218417. https://doi.org/10.1371/journal.pone.0218417.Full Text Open Access Copy Link to Item
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Holbrook, Matthew, Darin P. Clark, and Cristian T. Badea. “Overcoming detector limitations of x-ray photon counting for preclinical microcomputed tomography.” J Med Imaging (Bellingham) 6, no. 1 (January 2019): 011004. https://doi.org/10.1117/1.JMI.6.1.011004.Full Text Open Access Copy Link to Item
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Lin, Alex Y., Yifu Ding, Daniel J. Vanselow, Spencer R. Katz, Maksim A. Yakovlev, Darin P. Clark, David Mandrell, Jean E. Copper, Damian B. van Rossum, and Keith C. Cheng. “Rigid Embedding of Fixed and Stained, Whole, Millimeter-Scale Specimens for Section-free 3D Histology by Micro-Computed Tomography.” J Vis Exp, no. 140 (October 17, 2018). https://doi.org/10.3791/58293.Full Text Link to Item
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Holbrook, M., D. P. Clark, and C. T. Badea. “Low-dose 4D cardiac imaging in small animals using dual source micro-CT.” Phys Med Biol 63, no. 2 (January 9, 2018): 025009. https://doi.org/10.1088/1361-6560/aa9b45.Full Text Open Access Copy Link to Item
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Clark, Darin P., and Cristian T. Badea. “Hybrid spectral CT reconstruction.” Plos One 12, no. 7 (2017): e0180324. https://doi.org/10.1371/journal.pone.0180324.Full Text Open Access Copy Link to Item
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Touch, Mengheng, Darin P. Clark, William Barber, and Cristian T. Badea. “A neural network-based method for spectral distortion correction in photon counting x-ray CT.” Phys Med Biol 61, no. 16 (August 21, 2016): 6132–53. https://doi.org/10.1088/0031-9155/61/16/6132.Full Text Open Access Copy Link to Item
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Clark, Darin P., Chang-Lung Lee, David G. Kirsch, and Cristian T. Badea. “Spectrotemporal CT data acquisition and reconstruction at low dose.” Med Phys 42, no. 11 (November 2015): 6317–36. https://doi.org/10.1118/1.4931407.Full Text Open Access Copy Link to Item
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Clark, Darin P., and Cristian T. Badea. “Spectral diffusion: an algorithm for robust material decomposition of spectral CT data.” Phys Med Biol 59, no. 21 (November 7, 2014): 6445–66. https://doi.org/10.1088/0031-9155/59/21/6445.Full Text Open Access Copy Link to Item
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Clark, D. P., and C. T. Badea. “Micro-CT of rodents: state-of-the-art and future perspectives.” Phys Med 30, no. 6 (September 2014): 619–34. https://doi.org/10.1016/j.ejmp.2014.05.011.Full Text Open Access Copy Link to Item
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Lee, Chang-Lung, Hooney Min, Nicholas Befera, Darin Clark, Yi Qi, Shiva Das, G Allan Johnson, Cristian T. Badea, and David G. Kirsch. “Assessing cardiac injury in mice with dual energy-microCT, 4D-microCT, and microSPECT imaging after partial heart irradiation.” Int J Radiat Oncol Biol Phys 88, no. 3 (March 1, 2014): 686–93. https://doi.org/10.1016/j.ijrobp.2013.11.238.Full Text Open Access Copy Link to Item
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Ashton, Jeffrey R., Darin P. Clark, Everett J. Moding, Ketan Ghaghada, David G. Kirsch, Jennifer L. West, and Cristian T. Badea. “Dual-energy micro-CT functional imaging of primary lung cancer in mice using gold and iodine nanoparticle contrast agents: a validation study.” Plos One 9, no. 2 (2014): e88129. https://doi.org/10.1371/journal.pone.0088129.Full Text Open Access Copy Link to Item
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Ashton, Jeffrey R., Nicholas Befera, Darin Clark, Yi Qi, Lan Mao, Howard A. Rockman, G Allan Johnson, and Cristian T. Badea. “Anatomical and functional imaging of myocardial infarction in mice using micro-CT and eXIA 160 contrast agent.” Contrast Media Mol Imaging 9, no. 2 (2014): 161–68. https://doi.org/10.1002/cmmi.1557.Full Text Link to Item
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Clark, D., A. Badea, G. A. Johnson, and C. T. Badea. “Constructing a 4D murine cardiac micro-CT atlas for automated segmentation and phenotyping applications.” Progress in Biomedical Optics and Imaging Proceedings of Spie 8669 (June 3, 2013). https://doi.org/10.1117/12.2007043.Full Text
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Moding, Everett J., Darin P. Clark, Yi Qi, Yifan Li, Yan Ma, Ketan Ghaghada, G Allan Johnson, David G. Kirsch, and Cristian T. Badea. “Dual-energy micro-computed tomography imaging of radiation-induced vascular changes in primary mouse sarcomas.” Int J Radiat Oncol Biol Phys 85, no. 5 (April 1, 2013): 1353–59. https://doi.org/10.1016/j.ijrobp.2012.09.027.Full Text Link to Item
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Clark, Darin P., Ketan Ghaghada, Everett J. Moding, David G. Kirsch, and Cristian T. Badea. “In vivo characterization of tumor vasculature using iodine and gold nanoparticles and dual energy micro-CT.” Phys Med Biol 58, no. 6 (March 21, 2013): 1683–1704. https://doi.org/10.1088/0031-9155/58/6/1683.Full Text Link to Item
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Bhavane, Rohan, Cristian Badea, Ketan B. Ghaghada, Darin Clark, Deborah Vela, Anoosha Moturu, Akshaya Annapragada, G Allan Johnson, James T. Willerson, and Ananth Annapragada. “Dual-energy computed tomography imaging of atherosclerotic plaques in a mouse model using a liposomal-iodine nanoparticle contrast agent.” Circ Cardiovasc Imaging 6, no. 2 (March 1, 2013): 285–94. https://doi.org/10.1161/CIRCIMAGING.112.000119.Full Text Link to Item
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Clark, Darin, Alexandra Badea, Yilin Liu, G Allan Johnson, and Cristian T. Badea. “Registration-based segmentation of murine 4D cardiac micro-CT data using symmetric normalization.” Phys Med Biol 57, no. 19 (October 7, 2012): 6125–45. https://doi.org/10.1088/0031-9155/57/19/6125.Full Text Link to Item
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Badea, C. T., X. Guo, D. Clark, S. M. Johnston, C. D. Marshall, and C. A. Piantadosi. “Dual-energy micro-CT of the rodent lung.” Am J Physiol Lung Cell Mol Physiol 302, no. 10 (May 15, 2012): L1088–97. https://doi.org/10.1152/ajplung.00359.2011.Full Text Link to Item
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Badea, C. T., X. Guo, D. Clark, S. M. Johnston, C. Marshall, and C. Piantadosi. “Lung imaging in rodents using dual energy micro-CT.” Proc Spie Int Soc Opt Eng 8317 (April 3, 2012). https://doi.org/10.1117/12.912155.Full Text Link to Item
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Badea, Cristian T., Khannan K. Athreya, Gabriela Espinosa, Darin Clark, A Paiman Ghafoori, Yifan Li, David G. Kirsch, G Allan Johnson, Ananth Annapragada, and Ketan B. Ghaghada. “Computed tomography imaging of primary lung cancer in mice using a liposomal-iodinated contrast agent.” Plos One 7, no. 4 (2012): e34496. https://doi.org/10.1371/journal.pone.0034496.Full Text Open Access Copy Link to Item
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Bell, Robert C., Deevakar Rogith, Craig W. Johnson, Cristian T. Badea, Khannan K. Athreya, Gabriela Espinosa, Darin Clark, et al. “Data analysis: evaluation of nanoscale contrast agent enhanced CT scan to differentiate between benign and malignant lung cancer in mouse model.” Amia Annu Symp Proc 2012 (2012): 27–35.Link to Item
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Conference Papers
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Allphin, A. J., D. P. Clark, A. Badea, and C. T. Badea. “Anatomical and functional cardiac PCCT imaging pipeline for characterization of Apolipoprotein E mouse models.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 12036, 2022. https://doi.org/10.1117/12.2611806.Full Text
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Allphin, A. J., Y. Mowery, K. J. Lafata, D. P. Clark, A. Basil, R. Castillo, M. D. Holbrook, K. B. Ghaghada, and C. T. Badea. “Spectral micro-CT and nanoradiomic analysis for classification of tumors based on lymphocytic burden in cancer therapy studies.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 12036, 2022. https://doi.org/10.1117/12.2611519.Full Text
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Badea, C. T., D. P. Clark, A. Alphin, J. C. Ramirez-Giraldo, P. Bhandari, Y. M. Mowery, and K. B. Ghaghada. “Co-clinical photon counting CT research for multi-contrast imaging.” In Proceedings of Spie the International Society for Optical Engineering, Vol. 12304, 2022. https://doi.org/10.1117/12.2646399.Full Text
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Badea, C. T., D. P. Clark, A. Alphin, K. B. Ghaghada, and Y. M. Mowery. “Photon Counting Micro-CT for Imaging Cisplatin.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 12036, 2022. https://doi.org/10.1117/12.2612574.Full Text
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Clark, D. P., A. J. Allphin, Y. M. Mowery, and C. T. Badea. “Photon-counting X-ray CT perfusion imaging in animal models of cancer.” In Proceedings of Spie the International Society for Optical Engineering, Vol. 12304, 2022. https://doi.org/10.1117/12.2646403.Full Text
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Clark, D. P., E. Abadi, N. Felice, W. P. Segars, E. Samei, and C. T. Badea. “Cardiac CT reconstruction for vendor-neutral virtual imaging trials.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 12031, 2022. https://doi.org/10.1117/12.2612950.Full Text
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Clark, D. P., and C. T. Badea. “Volumetric, dual-domain x-ray CT reconstruction with deep learning.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 12031, 2022. https://doi.org/10.1117/12.2611771.Full Text
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Nadkarni, R., A. Allphin, D. P. Clark, and C. T. Badea. “Material Decomposition from Photon-Counting CT using a Convolutional Neural Network and Energy-Integrating CT Training Labels.” In Proceedings of Spie the International Society for Optical Engineering, Vol. 12304, 2022. https://doi.org/10.1117/12.2646405.Full Text
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Clark, D. P., and C. T. Badea. “A constrained bregman framework for unsupervised convolutional denoising of multi-channel x-ray ct data.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 11595, 2021. https://doi.org/10.1117/12.2581832.Full Text
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Holbrook, M. D., D. P. Clark, R. Patel, Y. Qi, Y. M. Mowery, and C. T. Badea. “Towards deep learning detection of lung nodules using micro-CT.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 11600, 2021. https://doi.org/10.1117/12.2581120.Full Text
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Holbrook, M. D., D. P. Clark, and C. T. Badea. “Deep learning based spectral distortion correction and decomposition for photon counting ct using calibration provided by an energy integrated detector.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 11595, 2021. https://doi.org/10.1117/12.2581124.Full Text
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Badea, C. T., K. Ghaghada, M. D. Holbrook, P. Bhandari, D. P. Clark, Y. Qi, and Y. Mowery. “A spectral CT study on iodine augmentation of radiation therapy and its potential for combination with chemotherapy.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 11317, 2020. https://doi.org/10.1117/12.2549583.Full Text
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Clark, D. P., and C. T. Badea. “Fast spectral x-ray CT reconstruction with data-adaptive, convolutional regularization.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 11312, 2020. https://doi.org/10.1117/12.2549615.Full Text
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Holbrook, M. D., D. P. Clark, and C. T. Badea. “Hybrid energy integrating and photon counting micro-CT.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 11312, 2020. https://doi.org/10.1117/12.2549603.Full Text
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Holbrook, M. D., D. P. Clark, and C. T. Badea. “Development of a spectral Micro-CT system using a photon counting detector with anti-coincidence corrections.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 11312, 2020. https://doi.org/10.1117/12.2549617.Full Text
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Clark, D. P., and C. T. Badea. “Spectral data completion for dual-source x-ray CT.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 10948, 2019. https://doi.org/10.1117/12.2512825.Full Text
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Clark, D. P., and C. T. Badea. “Convolutional regularization methods for 4D, x-ray CT reconstruction.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 10948, 2019. https://doi.org/10.1117/12.2512816.Full Text
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Badea, C. T., M. Holbrook, D. P. Clark, and K. Ghaghada. “Spectral imaging of iodine and gadolinium nanoparticles using dual-energy CT.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 10573, 2018. https://doi.org/10.1117/12.2293625.Full Text
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Clark, D. P., M. Holbrook, and C. T. Badea. “Multi-energy CT decomposition using convolutional neural networks.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 10573, 2018. https://doi.org/10.1117/12.2293728.Full Text
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Clark, D. P., and C. T. Badea. “Data-efficient methods for multi-channel x-ray CT reconstruction.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 10573, 2018. https://doi.org/10.1117/12.2293628.Full Text
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Holbrook, M., D. P. Clark, W. Barber, and C. T. Badea. “Development of a spectral photon-counting micro-CT system with a translate-rotate geometry.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 10573, 2018. https://doi.org/10.1117/12.2293373.Full Text
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Holbrook, M., D. P. Clark, and C. T. Badea. “Multiscale dual energy micro-CT for imaging using iodinated and gold nanoparticles.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 10573, 2018. https://doi.org/10.1117/12.2293688.Full Text
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Clark, D. P., and C. T. Badea. “A data-driven regularization strategy for statistical CT reconstruction.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 10132, 2017. https://doi.org/10.1117/12.2254484.Full Text
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Clark, D. P., and C. T. Badea. “Localized and efficient cardiac CT reconstruction.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 10132, 2017. https://doi.org/10.1117/12.2254700.Full Text
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Clark, D. P., and C. T. Badea. “Low-dose 4D myocardial perfusion with x-ray micro-CT.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 10132, 2017. https://doi.org/10.1117/12.2254548.Full Text
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Xin, X., D. Clark, K. C. Ang, D. B. Van Rossum, J. Copper, X. Xiao, P. J. La Riviere, and K. C. Cheng. “Synchrotron microCT imaging of soft tissue in juvenile zebrafish reveals retinotectal projections.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 10060, 2017. https://doi.org/10.1117/12.2267477.Full Text
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Clark, D. P., and C. T. Badea. “Resolution-enhancing hybrid, spectral CT reconstruction.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 9783, 2016. https://doi.org/10.1117/12.2216935.Full Text
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Clark, D. P., and C. T. Badea. “Joint regularization for spectrooral CT reconstruction.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 9783, 2016. https://doi.org/10.1117/12.2217091.Full Text
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Touch, M., D. P. Clark, W. Barber, and C. T. Badea. “Novel approaches to address spectral distortions in photon counting x-ray CT using artificial neural networks.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 9783, 2016. https://doi.org/10.1117/12.2217037.Full Text
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Clark, D. P., C. L. Lee, D. G. Kirsch, and C. T. Badea. “Rank-sparsity constrained, spectro-temporal reconstruction for retrospectively gated, dynamic CT.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 9412, 2015. https://doi.org/10.1117/12.2081379.Full Text
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Clark, D. P., M. Touch, W. Barber, and C. T. Badea. “Simultaneous imaging of multiple contrast agents using full-spectrum micro-CT.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 9412, 2015. https://doi.org/10.1117/12.2081049.Full Text
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Clark, D. P., and C. T. Badea. “Spectral deblurring: An algorithm for high-resolution, hybrid spectral CT.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 9412, 2015. https://doi.org/10.1117/12.2081249.Full Text
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Clark, D. P., and C. T. Badea. “Rank-sparsity constrained atlas construction and phenotyping.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 9413, 2015. https://doi.org/10.1117/12.2081415.Full Text
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Badea, C. T., N. Befera, D. Clark, Y. Qi, and G. A. Johnson. “Dual-energy micro-CT imaging of pulmonary airway obstruction: Correlation with micro-SPECT.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 9038, 2014. https://doi.org/10.1117/12.2043094.Full Text
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Clark, D. P., G. A. Johnson, and C. T. Badea. “A multi-resolution approach to retrospectively-gated cardiac micro-CT reconstruction.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 9033, 2014. https://doi.org/10.1117/12.2043044.Full Text
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Clark, D. P., G. A. Johnson, and C. T. Badea. “Robust material decomposition for spectral CT.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 9038, 2014. https://doi.org/10.1117/12.2042546.Full Text
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Clark, D., S. M. Johnston, G. A. Johnson, and C. T. Badea. “The effect of scatter correction on dual energy micro-CT.” In Progress in Biomedical Optics and Imaging Proceedings of Spie, Vol. 8668, 2013. https://doi.org/10.1117/12.2006904.Full Text
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Clark, D., G. A. Johnson, and C. T. Badea. “Denoising of 4D Cardiac Micro-CT Data Using Median-Centric Bilateral Filtration.” In Proc Spie Int Soc Opt Eng, Vol. 8314, 2012. https://doi.org/10.1117/12.911478.Full Text Link to Item
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