Research Summary

Janine Lupo, PhD, is a Professor in the Surbeck Laboratory of Advanced Imaging and Neuroimaging Research Interest Group of the Department of Radiology and Biomedical Imaging. She is a member of the UCSF/UC Berkeley Graduate Group in Bioengineering, Helen Diller Family Comprehensive Cancer Center, Institute for Computational Health Sciences, and Quantitative Biosciences Institute. Dr. Lupo received her BSE in Bioengineering at the University of Pennsylvania, School of Engineering and Applied Science in Philadelphia before completing her PhD at the UCSF/UCB PhD Joint Graduate Group in Bioengineering. Before accepting an in residence position, Dr. Lupo was an Assistant and Associate Researcher in the Department of Radiology and Biomedical Imaging at UCSF.

Dr. Lupo’s research focuses on the development and application of novel MR imaging data acquisition, processing, and analysis techniques for the evaluation of patients with brain tumors and other neurological diseases using our research 3T and 7T whole body scanners. This includes the development of quantitative algorithms critical for processing data from advanced acquisitions for patient studies, implementation of statistical and machine learning models to relate imaging markers with biological characteristics from pathology and clinical outcome in order to both identify patients who would benefit most for a given therapy, and monitor the effects of therapy over time on tumor control, normal brain tissue structure, and cognition.

Dr. Lupo has been the Principal or Co-Principal Investigator for multiple NIH and DoD grants, as well as a co-Project leader of 2 projects within an NIH Programmatic Project Grant and Brain Tumor SPORE Grant. She has published over 75 research articles.



Professional Interests:
Magnetic resonance imaging, ultra-high field MRI, algorithm development for quantitative image analysis, imaging biomarker discovery, brain cancer, neurological diseases, evaluation of therapy, the effects of therapy on cognition, statistical modeling, and deep learning

Research Funding

  • December 1, 2005 - July 31, 2024 - Noninvasive Metabolic Signatures to Improve Management of Molecular Subtypes of Glioma , Director of Imaging Core . Sponsor: NIH, Sponsor Award ID: P01CA118816
  • September 30, 2009 - June 30, 2024 - Brain Vascular Malformation Consortium: Predictor's of Clinical Course , Co-Investigator . Sponsor: NIH, Sponsor Award ID: U54NS065705
  • April 1, 2019 - March 31, 2024 - Mitigation of preanalytic factors influencing brain tumor protein phosphorylation , Co-Investigator . Sponsor: NIH, Sponsor Award ID: U01CA229345
  • September 20, 2002 - August 31, 2023 - Brain Tumor SPORE Grant , Co-PI of Project 2 . Sponsor: NIH, Sponsor Award ID: 2P50CA097257-16


University of Pennsylvania, Philadelphia, PA, BSE, 9/1997 – 5/2001, Bioengineering
University of California, San Francisco & Berkeley PhD 8/2001 – 8/2006, Bioengineering
University of California, San Francisco Post-Doc 9/2006 – 3/2010 High Field MRI of Brain

Honors & Awards

  • 2019
    Secretary, ISMRM MR Cancer Study Group
  • 2017
    Johnson & Johnson Women In STEM2D award in Engineering, UCSF nominee
  • 2016
    UCSF RAP Family Support Award
  • 2012
    NIH Clinical Loan Repayment Program Continuation Award
  • 2012
    UCSF RAP Grants Novel Clinical/Translational Methods Award
  • 2011
    UCSF Radiology Symposium Poster Award, UCSF
  • 2010
    Honorable Mention Poster Award, UCSF BTS Symposium
  • 2010
    NIH Clinical Loan Repayment Program Award
  • 2010
    UCSF Brain Tumor SPORE Career Development Award
  • 2010
    Neuroimaging Poster Award Nomination, ISMRM Conference

Selected Publications

  1. Vaziri S, Liu H, Xie E, Ratiney H, Sdika M, Lupo JM, Xu D, Li Y. Evaluation of deep learning models for quality control of MR spectra. Front Neurosci. 2023; 17:1219343.  View on PubMed
  2. Mao H, Garza-Villarreal EA, Moy L, Hussain T, Scott AD, Lupo JM, Zhou XJ, Fleischer CC. Ethical Considerations for MRI Research in Human Subjects in the Era of Precision Medicine. J Magn Reson Imaging. 2023 Aug 22.  View on PubMed
  3. Autry AW, Vaziri S, LaFontaine M, Gordon JW, Chen HY, Kim Y, Villanueva-Meyer JE, Molinaro A, Clarke JL, Oberheim Bush NA, Xu D, Lupo JM, Larson PEZ, Vigneron DB, Chang SM, Li Y. Multi-parametric hyperpolarized 13C/1H imaging reveals Warburg-related metabolic dysfunction and associated regional heterogeneity in high-grade human gliomas. Neuroimage Clin. 2023 Aug 18; 39:103501.  View on PubMed
  4. Hage S, Kinkade S, Girard R, Flemming KD, Kim H, Torbey MT, Huang J, Huston J, Shu Y, Selwyn RG, Hart BL, Mabray MC, Feghali J, Sair HI, Narvid J, Lupo JM, Lee J, Stadnik A, Alcazar R, Shenkar R, Hobson N, DeBiasse D, Lane K, McBee N, Treine K, Ostapkovich N, Wang Y, Thompson RE, Mendoza-Puccini C, Koenig J, Carroll T, Hanley DF, Awad IA. Cavernous Angioma Symptomatic Hemorrhage (CASH) Trial Readiness II: Imaging Biomarkers and Trial Modeling. medRxiv. 2023 Jun 05.  View on PubMed
  5. Yao J, Morrison MA, Lupo JM. Editorial for "Relationship Between Microstructural Alterations and Cognitive Decline After Whole-Brain Radiation Therapy for Brain Metastases: An Exploratory Whole-Brain MR Analysis Based on Neurite Orientation Dispersion and Density Imaging". J Magn Reson Imaging. 2023 May 17.  View on PubMed
  6. Jakary A, Lupo JM, Mackin S, Yin A, Murray D, Yang T, Mukherjee P, Larson P, Xu D, Eisendrath S, Luks T, Li Y. Evaluation of major depressive disorder using 7 Tesla phase sensitive neuroimaging before and after mindfulness-based cognitive therapy. J Affect Disord. 2023 08 15; 335:383-391.  View on PubMed
  7. Kim SJW, Lupo JM, Chen Y, Pampaloni MH, VanBrocklin HF, Narvid J, Kim H, Seo Y. A feasibility study for quantitative assessment of cerebrovascular malformations using flutriciclamide ([18F]GE-180) PET/MRI. Front Med (Lausanne). 2023; 10:1091463.  View on PubMed
  8. Genc O, Morrison MA, Villanueva-Meyer JE, Burns B, Hess CP, Banerjee S, Lupo JM. DeepSWI: Using Deep Learning to Enhance Susceptibility Contrast on T2*-Weighted MRI. J Magn Reson Imaging. 2023 Oct; 58(4):1200-1210.  View on PubMed
  9. Yao J, Morrison MA, Jakary A, Avadiappan S, Chen Y, Luitjens J, Glueck J, Driscoll T, Geschwind MD, Nelson AB, Villanueva-Meyer JE, Hess CP, Lupo JM. Comparison of quantitative susceptibility mapping methods for iron-sensitive susceptibility imaging at 7T: An evaluation in healthy subjects and patients with Huntington's disease. Neuroimage. 2023 01; 265:119788.  View on PubMed
  10. Avalos LN, Luks TL, Gleason T, Damasceno P, Li Y, Lupo JM, Phillips J, Oberheim Bush NA, Taylor JW, Chang SM, Villanueva-Meyer JE. Longitudinal MR spectroscopy to detect progression in patients with lower-grade glioma in the surveillance phase. Neurooncol Adv. 2022 Jan-Dec; 4(1):vdac175.  View on PubMed
  11. Morrison MA, Walter S, Mueller S, Felton E, Jakary A, Stoller S, Molinaro AM, Braunstein SE, Hess CP, Lupo JM. Functional network alterations in young brain tumor patients with radiotherapy-induced memory impairments and vascular injury. Front Neurol. 2022; 13:921984.  View on PubMed
  12. Vaziri S, Autry AW, Lafontaine M, Kim Y, Gordon JW, Chen HY, Hu JY, Lupo JM, Chang SM, Clarke JL, Villanueva-Meyer JE, Bush NAO, Xu D, Larson PEZ, Vigneron DB, Li Y. Assessment of higher-order singular value decomposition denoising methods on dynamic hyperpolarized [1-13C]pyruvate MRI data from patients with glioma. Neuroimage Clin. 2022; 36:103155.  View on PubMed
  13. Cluceru J, Lupo JM, Interian Y, Bove R, Crane JC. Improving the Automatic Classification of Brain MRI Acquisition Contrast with Machine Learning. J Digit Imaging. 2023 02; 36(1):289-305.  View on PubMed
  14. Kline C, Stoller S, Byer L, Samuel D, Lupo JM, Morrison MA, Rauschecker AM, Nedelec P, Faig W, Dubal DB, Fullerton HJ, Mueller S. An Integrated Analysis of Clinical, Genomic, and Imaging Features Reveals Predictors of Neurocognitive Outcomes in a Longitudinal Cohort of Pediatric Cancer Survivors, Enriched with CNS Tumors (Rad ART Pro). Front Oncol. 2022; 12:874317.  View on PubMed
  15. Cluceru J, Interian Y, Phillips JJ, Molinaro AM, Luks TL, Alcaide-Leon P, Olson MP, Nair D, LaFontaine M, Shai A, Chunduru P, Pedoia V, Villanueva-Meyer JE, Chang SM, Lupo JM. Improving the noninvasive classification of glioma genetic subtype with deep learning and diffusion-weighted imaging. Neuro Oncol. 2022 04 01; 24(4):639-652.  View on PubMed
  16. Chen Y, Genc O, Poynton CB, Banerjee S, Hess CP, Lupo JM. Comparison of quantitative susceptibility mapping methods on evaluating radiation-induced cerebral microbleeds and basal ganglia at 3T and 7T. NMR Biomed. 2022 05; 35(5):e4666.  View on PubMed
  17. Kim H, Flemming KD, Nelson JA, Lui A, Majersik JJ, Cruz MD, Zabramski J, Trevizo O, Lanzino G, Zafar A, Torbey M, Mabray MC, Robinson M, Narvid J, Lupo J, Thompson RE, Hanley DF, McBee N, Treine K, Ostapkovich N, Stadnik A, Piedad K, Hobson N, Carroll T, Shkoukani A, Carrión-Penagos J, Mendoza-Puccini C, Koenig JI, Awad I. Baseline Characteristics of Patients With Cavernous Angiomas With Symptomatic Hemorrhage in Multisite Trial Readiness Project. Stroke. 2021 12; 52(12):3829-3838.  View on PubMed
  18. Avadiappan S, Morrison MA, Jakary A, Felton E, Stoller S, Hess CP, Molinaro AM, Braunstein SE, Mueller S, Lupo JM. Relationship between 7T MR-angiography features of vascular injury and cognitive decline in young brain tumor patients treated with radiation therapy. J Neurooncol. 2021 May; 153(1):143-152.  View on PubMed
  19. Morrison MA, Lupo JM. 7-T Magnetic Resonance Imaging in the Management of Brain Tumors. Magn Reson Imaging Clin N Am. 2021 Feb; 29(1):83-102.  View on PubMed
  20. Autry AW, Park I, Kline C, Chen HY, Gordon JW, Raber S, Hoffman C, Kim Y, Okamoto K, Vigneron DB, Lupo JM, Prados M, Li Y, Xu D, Mueller S. Pilot Study of Hyperpolarized 13C Metabolic Imaging in Pediatric Patients with Diffuse Intrinsic Pontine Glioma and Other CNS Cancers. AJNR Am J Neuroradiol. 2021 01; 42(1):178-184.  View on PubMed

Go to UCSF Profiles, powered by CTSI