G. Allan Johnson

G. Allan Johnson

Charles E. Putman University Professor of Radiology

Office Location: 
141D Bryan Neuroscience Bldg, Research Drive, Durham, NC 27710
Front Office Address: 
Box 3302 Med Ctr, Durham, NC 27710
(919) 684-7754
Office Hours: 
8:30 AM-5:00 PM and by appointment.


Dr. Johnson is the Charles E. Putman University Professor of Radiology, Professor of Physics, and Biomedical Engineering, and Director of the Duke Center for In Vivo Microscopy (CIVM). The CIVM is an NIH/NIBIB national Biomedical Technology Resource Center with a mission to develop novel technologies for preclinical imaging (basic sciences) and apply the technologies to critical biomedical questions. Dr. Johnson was one of the first researchers to bring Paul Lauterbur's vision of magnetic resonance (MR) microscopy to practice as described in his paper, "Nuclear magnetic resonance imaging at microscopic resolution" (J Magn Reson 68:129-137, 1986). Dr. Johnson is involved in both the engineering physics required to extend the resolution of MR imaging and in a broad range of applications in the basic sciences.

Education & Training

  • Ph.D., Duke University 1974

Selected Grants

The Duke Preclinical Research Resources for Quantitative Imaging Biomarkers awarded by National Institutes of Health (PD/PI). 2017 to 2022

Waxholm Space for Rodent Neuroinformatics awarded by University of Pennsylvania (Principal Investigator). 2016 to 2019

Training in Medical Imaging awarded by National Institutes of Health (Mentor). 2003 to 2019

Quantitative MR Microscopy of Phenotypic Biomarkers in Alzheimer's Disease awarded by National Institutes of Health (Mentor). 2013 to 2018

Integrated Center For In Vivo Microscopy awarded by National Institutes of Health (Principal Investigator). 2003 to 2018

Serial Block Face Scanning Electron Microscope awarded by National Institutes of Health (Major User). 2016 to 2018

Ultra-resolution imaging of brain circuitry and its development in mental health awarded by National Institutes of Health (Co Investigator). 2013 to 2016

MRI Corticography (MRCoG): Micro-scale Human Cortical Imaging awarded by University of California - Berkeley (Collaborator). 2014 to 2016

Prevention of Temporal Lobe Epilepsy awarded by National Institutes of Health (Co Investigator). 2012 to 2015

Whole brain multimodal microscopy of an apoptosis reporter mouse awarded by National Institutes of Health (Collaborator). 2012 to 2014


Paxinos, G, Watson, C, Calabrese, E, Badea, A, and Johnson, G. An MRI/DTI Atlas of the Rat Brain. Elsevier, Academic Press, May 28, 2015.

Spiliopoulos, D, Kagadis, GC, Karnabatidis, D, Johnson, GA, and Badea, CT. "Digital Subtracted Angiography of Small Animals(Accepted)." Handbook of Small Animal Imaging: Preclinical Imaging, Therapy, and Applications. Ed. Kagadis, GC, Ford, NL, Loudos, GK and Karnabatidis, D.: Taylor & Francis Books, Inc., CRC Press. March 3, 2016. 67-75. (Chapter)

Zhou, X, and Johnson, GA. "Magnetic resonance microscopy." Medical Imaging: Principles and Practices. January 1, 2012. 5-42-6-14-null. Full Text

Zhou, X, and Johnson, GA. "Magnetic resonance microscopy." Medical Devices and Systems. January 1, 2006. 15-1-15-14-null.

Zhou, X, and Allan Johnson, G. "Magnetic resonance microscopy." Biomedical Imaging. January 1, 2003. 13-1-13-14-null.

Wang, N, Mirando, AJ, Cofer, G, Qi, Y, Hilton, MJ, and Johnson, GA. "Diffusion tractography of the rat knee at microscopic resolution.(Accepted)" Magnetic Resonance in Medicine 81.6 (June 2019): 3775-3786. Full Text

Privratsky, JR, Wang, N, Qi, Y, Ren, J, Morris, BT, Hunting, JC, Johnson, GA, and Crowley, SD. "Dynamic contrast-enhanced MRI promotes early detection of toxin-induced acute kidney injury." American Journal of Physiology. Renal Physiology 316.2 (February 2019): F351-F359. Full Text

Anderson, RJ, Cook, JJ, Delpratt, N, Nouls, JC, Gu, B, McNamara, JO, Avants, BB, Johnson, GA, and Badea, A. "Small Animal Multivariate Brain Analysis (SAMBA) - a High Throughput Pipeline with a Validation Framework." Neuroinformatics (December 19, 2018). Full Text

Wang, N, Cofer, G, Anderson, RJ, Qi, Y, Liu, C, and Johnson, GA. "Accelerating quantitative susceptibility imaging acquisition using compressed sensing." Physics in Medicine and Biology 63.24 (December 10, 2018): 245002-null. Full Text

Wang, N, Anderson, RJ, Badea, A, Cofer, G, Dibb, R, Qi, Y, and Johnson, GA. "Whole mouse brain structural connectomics using magnetic resonance histology." Brain Structure & Function 223.9 (December 2018): 4323-4335. Full Text

Allan Johnson, G, Wang, N, Anderson, RJ, Chen, M, Cofer, GP, Gee, JC, Pratson, F, Tustison, N, and White, LE. "Whole mouse brain connectomics." The Journal of Comparative Neurology (October 16, 2018). Full Text

Nouls, JC, Badea, A, Anderson, RBJ, Cofer, GP, and Allan Johnson, G. "Diffusion tensor imaging using multiple coils for mouse brain connectomics." Nmr in Biomedicine 31.6 (June 2018): e3921-null. Full Text

Calabrese, E, Adil, SM, Cofer, G, Perone, CS, Cohen-Adad, J, Lad, SP, and Johnson, GA. "Postmortem diffusion MRI of the entire human spinal cord at microscopic resolution." Neuroimage. Clinical 18 (January 2018): 963-971. Full Text

Wei, H, Gibbs, E, Zhao, P, Wang, N, Cofer, GP, Zhang, Y, Johnson, GA, and Liu, C. "Susceptibility tensor imaging and tractography of collagen fibrils in the articular cartilage." Magnetic Resonance in Medicine 78.5 (November 2017): 1683-1690. Full Text

Vetreno, RP, Yaxley, R, Paniagua, B, Johnson, GA, and Crews, FT. "Adult rat cortical thickness changes across age and following adolescent intermittent ethanol treatment." Addiction Biology 22.3 (May 2017): 712-723. Full Text


Johnson, GA, Anderson, RJ, Cook, JJ, Long, C, and Badea, A. "Image-processing pipelines: Applications in magnetic resonance histology." January 1, 2016. Full Text

Calabrese, E, Hickey, P, Hulette, C, Zhang, J, Parente, B, Lad, SP, and Johnson, GA. "Postmortem Diffusion MRI of the Human Brainstem and Thalamus for Deep Brain Stimulator Electrode Localization." September 2015.

Johnson, GA, Badea, A, Calabrese, E, Liu, C, and Xie, L. "Magnetic resonance histology—Applications in toxicology." September 2014. Full Text

Clark, DP, Johnson, GA, and Badea, CT. "Robust material decomposition for spectral CT." January 1, 2014. Full Text

Badea, CT, Befera, N, Clark, D, Qi, Y, and Johnson, GA. "Dual-energy micro-CT imaging of pulmonary airway obstruction: Correlation with micro-SPECT." January 1, 2014. Full Text

Johnston, SM, Johnson, GA, and Badea, CT. "Helical dual source cone-beam micro-CT." January 1, 2014.

Clark, D, Johnston, SM, Johnson, GA, and Badea, CT. "The effect of scatter correction on dual energy micro-CT." June 3, 2013. Full Text


Guo, X, Johnston, SM, Johnson, GA, and Badea, CT. "A comparison of sampling strategies for dual energy micro-CT." May 4, 2012. Full Text