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.

Expertise:
Bioengineering

Specialty:
Neuroimaging

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
  • July 1, 2017 - June 30, 2022 - IMPROVED MONITORING OF PREMANIFEST AND EARLY HUNTINGTONS USING 7T MULTIMODAL MRI , Co-PI . Sponsor: NIH, Sponsor Award ID: R01NS099564
  • December 1, 2019 - November 30, 2021 - 3D Multi-Contrast MRI with Automatic Brain Tissue and Lesion Segmentation , Co-PI . Sponsor: NIH, Sponsor Award ID: R21CA238137
  • April 1, 2015 - January 31, 2021 - MICROBLEEDS AS A MARKER OF RADIATION-INDUCED BRAIN INJURY IN PEDIATRIC PATIENTS , PI . Sponsor: NIH, Sponsor Award ID: R01HD079568

Education

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. Morrison MA, Yao J, Bhalerao R, Jakary A, Glueck J, Driscoll T, Geschwind MD, Nelson AB, Possin KL, Hess CP, Lupo JM. TRANSIENT ALTERATIONS IN THALAMO-CEREBELLAR FUNCTIONAL CONNECTIVITY IN PREMANIFEST HUNTINGTON'S DISEASE. medRxiv. 2025 Jan 15.  View on PubMed
  2. Yao J, Feng B S G, Shao M S G, Mendizabal A, Telesca D, Fang K, Ibragimova L, Shoaib J, Morrison MA, Lupo JM. Interplay between Sex and Disease Burden in Huntington's Disease: Clinical and Neuroimaging Perspectives. medRxiv. 2024 Nov 02.  View on PubMed
  3. Villanueva-Meyer JE, Bakas S, Tiwari P, Lupo JM, Calabrese E, Davatzikos C, Bi WL, Ismail M, Akbari H, Lohmann P, Booth TC, Wiestler B, Aerts HJWL, Rasool G, Tonn JC, Nowosielski M, Jain R, Colen RR, Pati S, Baid U, Vollmuth P, Macdonald D, Vogelbaum MA, Chang SM, Huang RY, Galldiks N, Response Assessment in Neuro Oncology (RANO) group. Artificial Intelligence for Response Assessment in Neuro Oncology (AI-RANO), part 1: review of current advancements. Lancet Oncol. 2024 Nov; 25(11):e581-e588.  View on PubMed
  4. Bakas S, Vollmuth P, Galldiks N, Booth TC, Aerts HJWL, Bi WL, Wiestler B, Tiwari P, Pati S, Baid U, Calabrese E, Lohmann P, Nowosielski M, Jain R, Colen R, Ismail M, Rasool G, Lupo JM, Akbari H, Tonn JC, Macdonald D, Vogelbaum M, Chang SM, Davatzikos C, Villanueva-Meyer JE, Huang RY, Response Assessment in Neuro Oncology (RANO) group. Artificial Intelligence for Response Assessment in Neuro Oncology (AI-RANO), part 2: recommendations for standardisation, validation, and good clinical practice. Lancet Oncol. 2024 Nov; 25(11):e589-e601.  View on PubMed
  5. Ellison J, Caliva F, Damasceno P, Luks TL, LaFontaine M, Cluceru J, Kemisetti A, Li Y, Molinaro AM, Pedoia V, Villanueva-Meyer JE, Lupo JM. Improving the Generalizability of Deep Learning for T2-Lesion Segmentation of Gliomas in the Post-Treatment Setting. Bioengineering (Basel). 2024 May 16; 11(5).  View on PubMed
  6. Liu J, Jakary A, Villanueva-Meyer JE, Butowski NA, Saloner D, Clarke JL, Taylor JW, Oberheim Bush NA, Chang SM, Xu D, Lupo JM. Automatic Brain Tissue and Lesion Segmentation and Multi-Parametric Mapping of Contrast-Enhancing Gliomas without the Injection of Contrast Agents: A Preliminary Study. Cancers (Basel). 2024 Apr 17; 16(8).  View on PubMed
  7. Beccari S, Mohamed E, Voong V, Hilz S, Lafontaine M, Shai A, Lim Y, Martinez J, Switzman B, Yu RL, Lupo JM, Chang EF, Hervey-Jumper SL, Berger MS, Costello JF, Phillips JJ. Quantitative Assessment of Preanalytic Variables on Clinical Evaluation of PI3/AKT/mTOR Signaling Activity in Diffuse Glioma. Mod Pathol. 2024 Jun; 37(6):100488.  View on PubMed
  8. Bobholz SA, Lowman AK, Connelly JM, Duenweg SR, Winiarz A, Nath B, Kyereme F, Brehler M, Bukowy J, Coss D, Lupo JM, Phillips JJ, Ellingson BM, Krucoff MO, Mueller WM, Banerjee A, LaViolette PS. Noninvasive Autopsy-Validated Tumor Probability Maps Identify Glioma Invasion Beyond Contrast Enhancement. Neurosurgery. 2024 Sep 01; 95(3):537-547.  View on PubMed
  9. Mathur R, Wang Q, Schupp PG, Nikolic A, Hilz S, Hong C, Grishanina NR, Kwok D, Stevers NO, Jin Q, Youngblood MW, Stasiak LA, Hou Y, Wang J, Yamaguchi TN, Lafontaine M, Shai A, Smirnov IV, Solomon DA, Chang SM, Hervey-Jumper SL, Berger MS, Lupo JM, Okada H, Phillips JJ, Boutros PC, Gallo M, Oldham MC, Yue F, Costello JF. Glioblastoma evolution and heterogeneity from a 3D whole-tumor perspective. Cell. 2024 01 18; 187(2):446-463.e16.  View on PubMed
  10. Autry AW, Vaziri S, Gordon JW, Chen HY, Kim Y, Dang D, LaFontaine M, Noeske R, Bok R, Villanueva-Meyer JE, Clarke JL, Oberheim Bush NA, Chang SM, Xu D, Lupo JM, Larson PEZ, Vigneron DB, Li Y. Advanced Hyperpolarized 13C Metabolic Imaging Protocol for Patients with Gliomas: A Comprehensive Multimodal MRI Approach. Cancers (Basel). 2024 Jan 13; 16(2).  View on PubMed
  11. Yao J, Morrison MA, Jakary A, Avadiappan S, Rowley P, Glueck J, Driscoll T, Geschwind MD, Nelson AB, Possin KL, Xu D, Hess CP, Lupo JM. Altered Iron and Microstructure in Huntington's Disease Subcortical Nuclei: Insight From 7T MRI. J Magn Reson Imaging. 2024 Oct; 60(4):1484-1499.  View on PubMed
  12. Flemming KD, Kim H, Hage S, Mandrekar J, Kinkade S, Girard R, Torbey M, Huang J, Huston J, Shu Y, Lanzino G, Selwyn R, Hart B, Mabray M, Feghali J, Sair HI, Narvid J, Lupo JM, Lee J, Stadnik A, Alcazar-Felix RJ, Shenkar R, Lane K, McBee N, Treine K, Ostapkovich N, Wang Y, Thompson R, Koenig JI, Carroll T, Hanley D, Awad I. Trial Readiness of Cavernous Malformations With Symptomatic Hemorrhage, Part I: Event Rates and Clinical Outcome. Stroke. 2024 01; 55(1):22-30.  View on PubMed
  13. 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-Felix RJ, Shenkar R, Hobson N, DeBiasse D, Lane K, McBee NA, Treine K, Ostapkovich N, Wang Y, Thompson RE, Koenig JI, Carroll T, Hanley DF, Awad IA. Trial Readiness of Cavernous Malformations With Symptomatic Hemorrhage, Part II: Biomarkers and Trial Modeling. Stroke. 2024 01; 55(1):31-39.  View on PubMed
  14. Garza-Villarreal EA, Moy L, Mao H, Hussain T, Lupo JM, Fleischer CC, Scott AD. Ethical considerations of preclinical models in imaging research. Magn Reson Med. 2024 Mar; 91(3):858-859.  View on PubMed
  15. 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
  16. 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. 2024 05; 59(5):1864-1866.  View on PubMed
  17. 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; 39:103501.  View on PubMed
  18. 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
  19. 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. 2024 01; 59(1):253-254.  View on PubMed
  20. 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

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