The goal of this TR&D project is to develop novel, open-source, DICOM compliant, cross-platform software tools for reconstruction, quantification and visualization of hyperpolarized MR data as driven by the needs of the Collaborative Projects. There are currently no other packages available for analysis of the results obtained using the fast imaging and spectroscopy pulse sequences associated with this new in vivo technology. This address a pressing need because the multi-dimensional data produced following injection of pre-polarized imaging probes provide dramatic improvements in sensitivity over conventional methods and unique information about metabolic processes within living systems.
Specific Aim 1 will start with the SIVIC software framework being developed at UCSF for evaluation of MR metabolic imaging data and will expand the underlying libraries to include modules for interpreting vendor specific file formats and acquisition parameters, processing raw data and displaying the resulting temporal and spatial arrays. The enhanced package will be made available to the Service Projects and the general research community through a web portal that provides comprehensive documentation, test datasets, bug reporting and user feedback.
Specific Aim 2 will focus on the specialized reconstruction algorithms needed for analysis of the data. Acquisition strategies considered for imaging and spectroscopy datasets include parallel sampling, echo planar, spiral or other variable k-space sampling and compressed sensing. Frequency specific imaging, view-sharing and keyhole imaging may also be utilized for monitoring dynamic processes.
Specific Aim 3 will address the quantitative analysis of hyperpolarized MR data using non-linear fitting techniques to estimate spectral peak intensifies and by modeling dynamic processes to determine rate constants and metabolite radios. The general strategy will be to develop modular processing pipelines that can be put together in a flexible fashion in order to represent a wide range of different metabolic pathways. There will be regular training sessions for users associated with the Collaborative and Service Projects, as well as ongoing dialogue about the ease of use and requirements for new capabilities. Contributions from researchers in other institutions will be encouraged by free, open sharing of the source code and methodology.

Public Health Relevance

In this project we will focus on developing a comprehensive, open source software framework that includes reconstruction and post-processing algorithms to quantify and visualize multi-dimensional hyperpolarized MR imaging and spectroscopy data. These computational tools are critical for moving the technology forward and investigating the broad range of applications proposed by our collaborative and service projects.

National Institute of Health (NIH)
National Institute of Biomedical Imaging and Bioengineering (NIBIB)
Biotechnology Resource Grants (P41)
Project #
Application #
Study Section
Special Emphasis Panel (ZEB1-OSR-E (M2))
Project Start
Project End
Budget Start
Budget End
Support Year
Fiscal Year
Total Cost
Indirect Cost
University of California San Francisco
San Francisco
United States
Zip Code
Zhang, Xiaoliang; Martin, Alastair; Jordan, Caroline et al. (2017) Design of catheter radio frequency coils using coaxial transmission line resonators for interventional neurovascular MR imaging. Quant Imaging Med Surg 7:187-194
Ragavan, Mukundan; Kirpich, Alexander; Fu, Xiaorong et al. (2017) A comprehensive analysis of myocardial substrate preference emphasizes the need for a synchronized fluxomic/metabolomic research design. Am J Physiol Heart Circ Physiol 312:H1215-H1223
Marco-Rius, Irene; von Morze, Cornelius; Sriram, Renuka et al. (2017) Monitoring acute metabolic changes in the liver and kidneys induced by fructose and glucose using hyperpolarized [2-13 C]dihydroxyacetone. Magn Reson Med 77:65-73
Marco-Rius, Irene; Cao, Peng; von Morze, Cornelius et al. (2017) Multiband spectral-spatial RF excitation for hyperpolarized [2-13 C]dihydroxyacetone 13 C-MR metabolism studies. Magn Reson Med 77:1419-1428
von Morze, Cornelius; Tropp, James; Chen, Albert P et al. (2017) Sensitivity enhancement for detection of hyperpolarized 13 C MRI probes with 1 H spin coupling introduced by enzymatic transformation in vivo. Magn Reson Med :
Baligand, Celine; Qin, Hecong; True-Yasaki, Aisha et al. (2017) Hyperpolarized 13 C magnetic resonance evaluation of renal ischemia reperfusion injury in a murine model. NMR Biomed 30:
Aggarwal, Rahul; Vigneron, Daniel B; Kurhanewicz, John (2017) Hyperpolarized 1-[13C]-Pyruvate Magnetic Resonance Imaging Detects an Early Metabolic Response to Androgen Ablation Therapy in Prostate Cancer. Eur Urol 72:1028-1029
Chen, Hsin-Yu; Larson, Peder E Z; Bok, Robert A et al. (2017) Assessing Prostate Cancer Aggressiveness with Hyperpolarized Dual-Agent 3D Dynamic Imaging of Metabolism and Perfusion. Cancer Res 77:3207-3216
Milshteyn, Eugene; von Morze, Cornelius; Reed, Galen D et al. (2017) Development of high resolution 3D hyperpolarized carbon-13 MR molecular imaging techniques. Magn Reson Imaging 38:152-162
Guglielmetti, Caroline; Najac, ChloƩ; Didonna, Alessandro et al. (2017) Hyperpolarized 13C MR metabolic imaging can detect neuroinflammation in vivo in a multiple sclerosis murine model. Proc Natl Acad Sci U S A 114:E6982-E6991

Showing the most recent 10 out of 101 publications