Yan Li, PhD

Title(s)Associate Professor, Radiology
SchoolSchool of Medicine
Address185 Berry Street Bldg B, #373
San Francisco CA 94158
Phone415-514-2104
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    Collapse Biography 
    Collapse Education and Training
    Shanghai Jiao Tong University, Shanghai, ChinaBachelor of Medicine2002Clinical Medicine
    McGill University, Montreal, Quebec, CanadaMS2004Biochemistry
    University of California, Berkeley & San Francisco, California, USAPh.D.2008Bioengineering
    University of California, San Francisco, CA2021Diversity, Equity, and Inclusion Champion Training
    Collapse Awards and Honors
    UCSF2020The National Comprehensive Cancer Network (NCCN) Foundation Young Investigator Award, UCSF nominee
    UCSF Brain Tumor SPORE 2021  - 2022Developmental Research Program Award
    UCSF2023  - 2023RAP Pilot Award for Early Career Investigators
    UCSF2024  - 2024RAP Shared Technology Award

    Collapse Overview 
    Collapse Overview
    Dr. Yan Li is an Associate Professor in the Department of Radiology and Biomedical Imaging. Her research focuses on developing methods for obtaining reliable metabolic information from the brain to characterize spatial and temporal heterogeneity and the biological behavior during disease time for brain tumors, psychiatric and neurologic diseases. This includes the development of new methods for obtaining whole-brain metabolites and tools for generating metrics of brain neurotransmitters using 3T and 7T MR scanners, implementation of statistical methods to relate metabolic metrics to clinical outcomes or measures, and integration of steady-state 1H metabolic imaging with PET, hyperpolarized 13C and advanced MR imaging parameters in order to elucidate the underlying normal and abnormal biological process.
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    Collapse Research 
    Collapse Research Activities and Funding
    Brain Tumor SPORE Grant
    NIH 2P50CA097257-21Sep 1, 2023 - Aug 31, 2028
    Role: Project Co-Leader of Project 2
    Automatic, Rapid, High-Resolution Metabolic Imaging for Improved Management of Patients with Glioma
    Department of Defense USAMRAA HT9425-23-1-0510Sep 1, 2023 - Aug 31, 2027
    Role: Principal Investigator
    Integrating 1H MRS with 2H-Labeled Glucose to Characterize Dynamic Glutamate Metabolism in Major Depressive Disorder
    NIH R21MH130817Mar 1, 2023 - Feb 28, 2025
    Role: Contact Principal Investigator
    Multimodal Neuroimaging for Evaluating Lower-Grade Astrocytoma
    Department of Defense USAMRAA W81XWH-22-1-0884Sep 15, 2022 - Sep 14, 2026
    Role: Principal Investigator
    Multimodality Neuroimaging Evaluation of Cognitive Functioning in Lower Grade Astrocytoma
    NIH R01CA273028Sep 9, 2022 - Aug 31, 2027
    Role: Contact Principal Investigator
    Quantitative Steady-State and Dynamic Metabolic MRI for Evaluating Patients with Glioma
    NIH R01CA262630Mar 8, 2022 - Feb 28, 2027
    Role: Multiple Principal Investigator
    Monitoring Patients with IDH-Mutant Astrocytoma Using Dynamic and Steady-State Metabolic Imaging
    Department of Defense USAMRAA W81XWH-21-1-0412Sep 1, 2021 - Aug 31, 2024
    Role: Principal Investigator
    Neural mechanisms of speech motor control in Autism Spectrum Disorders
    NIH R01DC019167Aug 2, 2021 - May 31, 2026
    Role: Multiple Principal Investigator
    Simultaneous multi-slice GABA-edited MRSI in the developing brain
    NIH R21HD092660Jul 15, 2017 - Jun 30, 2020
    Role: Principal Investigator

    Collapse ORNG Applications 
    Collapse Clinical Trials
    Collapse Academic Senate

    Collapse Bibliographic 
    Collapse Publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
    Newest   |   Oldest   |   Most Cited   |   Most Discussed   |   Timeline   |   Field Summary   |   Plain Text
    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Evaluation of deep learning models for quality control of MR spectra. Frontiers in Neuroscience. 2023 Aug 29; 17:1219343. Vaziri VS, Liu LH, Xie XE, Ratiney RH, Sdika SM, Lupo LJ, Xu XD, Li LY. .
      View in: Publisher Site   Mentions:
    2. Atlas-Based Adaptive Hadamard-Encoded MR Spectroscopic Imaging at 3T. Tomography. 2023 Aug 23; 9(5):1592-1602. Liu LH, Autry AA, Larson LP, Xu XD, Li LY. .
      View in: Publisher Site   Mentions:
    3. 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. Jakary A, Lupo JM, Mackin S, Yin A, Murray D, Yang T, Mukherjee P, Larson P, Xu D, Eisendrath S, Luks T, Li Y. PMID: 37192691.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    4. Longitudinal MR spectroscopy to detect progression in patients with lower-grade glioma in the surveillance phase. Neurooncol Adv. 2022 Jan-Dec; 4(1):vdac175. Avalos LN, Luks TL, Gleason T, Damasceno P, Li Y, Lupo JM, Phillips J, Oberheim Bush NA, Taylor JW, Chang SM, Villanueva-Meyer JE. PMID: 36479058; PMCID: PMC9721386.
      View in: PubMed   Mentions: 1  
    5. 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. 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. PMID: 36007439; PMCID: PMC9421383.
      View in: PubMed   Mentions: 4     Fields:    Translation:Humans
    6. Spectroscopic imaging of D-2-hydroxyglutarate and other metabolites in pre-surgical patients with IDH-mutant lower-grade gliomas. J Neurooncol. 2022 Aug; 159(1):43-52. Autry AW, Lafontaine M, Jalbert L, Phillips E, Phillips JJ, Villanueva-Meyer J, Berger MS, Chang SM, Li Y. PMID: 35672531; PMCID: PMC9325821.
      View in: PubMed   Mentions: 4     Fields:    Translation:Humans
    7. Current human brain applications and challenges of dynamic hyperpolarized carbon-13 labeled pyruvate MR metabolic imaging. Eur J Nucl Med Mol Imaging. 2021 12; 48(13):4225-4235. Li Y, Vigneron DB, Xu D. PMID: 34432118; PMCID: PMC8566394.
      View in: PubMed   Mentions: 6     Fields:    Translation:Humans
    8. Denoising of hyperpolarized 13 C MR images of the human brain using patch-based higher-order singular value decomposition. Magn Reson Med. 2021 11; 86(5):2497-2511. Kim Y, Chen HY, Autry AW, Villanueva-Meyer J, Chang SM, Li Y, Larson PEZ, Brender JR, Krishna MC, Xu D, Vigneron DB, Gordon JW. PMID: 34173268; PMCID: PMC8530853.
      View in: PubMed   Mentions: 8     Fields:    Translation:Humans
    9. 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. 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. PMID: 33272950; PMCID: PMC7814790.
      View in: PubMed   Mentions: 7     Fields:    Translation:HumansCTClinical Trials
    10. A variable resolution approach for improved acquisition of hyperpolarized 13 C metabolic MRI. Magn Reson Med. 2020 12; 84(6):2943-2952. Gordon JW, Autry AW, Tang S, Graham JY, Bok RA, Zhu X, Villanueva-Meyer JE, Li Y, Ohilger MA, Abraham MR, Xu D, Vigneron DB, Larson PEZ. PMID: 32697867; PMCID: PMC7719570.
      View in: PubMed   Mentions: 22     Fields:    Translation:Animals
    11. Characterization of serial hyperpolarized 13C metabolic imaging in patients with glioma. Neuroimage Clin. 2020; 27:102323. Autry AW, Gordon JW, Chen HY, LaFontaine M, Bok R, Van Criekinge M, Slater JB, Carvajal L, Villanueva-Meyer JE, Chang SM, Clarke JL, Lupo JM, Xu D, Larson PEZ, Vigneron DB, Li Y. PMID: 32623139; PMCID: PMC7334458.
      View in: PubMed   Mentions: 29     Fields:    Translation:Humans
    12. Tensor image enhancement and optimal multichannel receiver combination analyses for human hyperpolarized 13 C MRSI. Magn Reson Med. 2020 12; 84(6):3351-3365. Chen HY, Autry AW, Brender JR, Kishimoto S, Krishna MC, Vareth M, Bok RA, Reed GD, Carvajal L, Gordon JW, van Criekinge M, Korenchan DE, Chen AP, Xu D, Li Y, Chang SM, Kurhanewicz J, Larson PEZ, Vigneron DB. PMID: 32501614; PMCID: PMC7718428.
      View in: PubMed   Mentions: 19     Fields:    Translation:Humans
    13. Hyperpolarized 13 C MRI data acquisition and analysis in prostate and brain at University of California, San Francisco. NMR Biomed. 2021 05; 34(5):e4280. Crane JC, Gordon JW, Chen HY, Autry AW, Li Y, Olson MP, Kurhanewicz J, Vigneron DB, Larson PEZ, Xu D. PMID: 32189442; PMCID: PMC7501204.
      View in: PubMed   Mentions: 15     Fields:    Translation:Humans
    14. C-13 Hyperpolarized MR Spectroscopy for Metabolic Imaging of Brain Tumors. . 2020 Jan 1; 191-209. Viswanath VP, Li LY, Ronen RS. .
      View in: Publisher Site   Mentions:
    15. First hyperpolarized [2-13C]pyruvate MR studies of human brain metabolism. J Magn Reson. 2019 12; 309:106617. Chung BT, Chen HY, Gordon J, Mammoli D, Sriram R, Autry AW, Le Page LM, Chaumeil MM, Shin P, Slater J, Tan CT, Suszczynski C, Chang S, Li Y, Bok RA, Ronen SM, Larson PEZ, Kurhanewicz J, Vigneron DB. PMID: 31648132; PMCID: PMC6880930.
      View in: PubMed   Mentions: 35     Fields:    Translation:HumansAnimalsPHPublic Health
    16. Kinetic Modeling of Hyperpolarized Carbon-13 Pyruvate Metabolism in the Human Brain. IEEE Trans Med Imaging. 2020 02; 39(2):320-327. Mammoli D, Gordon J, Autry A, Larson PEZ, Li Y, Chen HY, Chung B, Shin P, Van Criekinge M, Carvajal L, Slater JB, Bok R, Crane J, Xu D, Chang S, Vigneron DB. PMID: 31283497; PMCID: PMC6939147.
      View in: PubMed   Mentions: 22     Fields:    Translation:Humans
    17. Comparison between 8- and 32-channel phased-array receive coils for in vivo hyperpolarized 13 C imaging of the human brain. Magn Reson Med. 2019 08; 82(2):833-841. Autry AW, Gordon JW, Carvajal L, Mareyam A, Chen HY, Park I, Mammoli D, Vareth M, Chang SM, Wald LL, Xu D, Vigneron DB, Nelson SJ, Li Y. PMID: 30927300; PMCID: PMC6612511.
      View in: PubMed   Mentions: 20     Fields:    Translation:Humans
    18. Coil combination methods for multi-channel hyperpolarized 13C imaging data from human studies. J Magn Reson. 2019 04; 301:73-79. Zhu Z, Zhu X, Ohliger MA, Tang S, Cao P, Carvajal L, Autry AW, Li Y, Kurhanewicz J, Chang S, Aggarwal R, Munster P, Xu D, Larson PEZ, Vigneron DB, Gordon JW. PMID: 30851668; PMCID: PMC7170546.
      View in: PubMed   Mentions: 17     Fields:    Translation:Humans
    19. Targeting iron metabolism in high-grade glioma with 68Ga-citrate PET/MR. JCI Insight. 2018 11 02; 3(21). Behr SC, Villanueva-Meyer JE, Li Y, Wang YH, Wei J, Moroz A, Lee JK, Hsiao JC, Gao KT, Ma W, Cha S, Wilson DM, Seo Y, Nelson SJ, Chang SM, Evans MJ. PMID: 30385712; PMCID: PMC6238742.
      View in: PubMed   Mentions: 16     Fields:    Translation:HumansAnimals
    20. Translation of Carbon-13 EPI for hyperpolarized MR molecular imaging of prostate and brain cancer patients. Magn Reson Med. 2019 04; 81(4):2702-2709. Gordon JW, Chen HY, Autry A, Park I, Van Criekinge M, Mammoli D, Milshteyn E, Bok R, Xu D, Li Y, Aggarwal R, Chang S, Slater JB, Ferrone M, Nelson S, Kurhanewicz J, Larson PEZ, Vigneron DB. PMID: 30375043; PMCID: PMC6372313.
      View in: PubMed   Mentions: 44     Fields:    Translation:Humans
    21. Quantitative MRI of the Brain: Principles of Physical Measurement (by Mara Cercignani, Nicholas G. Dowell, Paul S. Tofts). Chapter 12: 1H Spectroscopy of the Brain. 2018. Yan Li and Sarah J. Nelson. .
    22. Reliable and Reproducible GABA Measurements Using Automated Spectral Prescription at Ultra-High Field. Front Hum Neurosci. 2017; 11:506. Li Y, Bian W, Larson P, Crane JC, Parvathaneni P, Nagarajan S, Nelson SJ. PMID: 29118697; PMCID: PMC5661373.
      View in: PubMed   Mentions: 2  
    23. Comparison between Short and Long Echo Time Magnetic Resonance Spectroscopic Imaging at 3T and 7T for Evaluating Brain Metabolites in Patients with Glioma. ACS Chem Neurosci. 2018 01 17; 9(1):130-137. Li Y, Lafontaine M, Chang S, Nelson SJ. PMID: 29035503; PMCID: PMC5771946.
      View in: PubMed   Mentions: 12     Fields:    Translation:Humans
    24. Fully automated atlas-based method for prescribing 3D PRESS MR spectroscopic imaging: Toward robust and reproducible metabolite measurements in human brain. Magn Reson Med. 2018 02; 79(2):636-642. Bian W, Li Y, Crane JC, Nelson SJ. PMID: 28470861; PMCID: PMC5670025.
      View in: PubMed   Mentions: 8     Fields:    Translation:Humans
    25. Association of early changes in 1H MRSI parameters with survival for patients with newly diagnosed glioblastoma receiving a multimodality treatment regimen. Neuro Oncol. 2017 03 01; 19(3):430-439. Nelson SJ, Kadambi AK, Park I, Li Y, Crane J, Olson M, Molinaro A, Roy R, Butowski N, Cha S, Chang S. PMID: 27576874; PMCID: PMC5464305.
      View in: PubMed   Mentions: 14     Fields:    Translation:Humans
    26. Serial analysis of 3D H-1 MRSI for patients with newly diagnosed GBM treated with combination therapy that includes bevacizumab. J Neurooncol. 2016 10; 130(1):171-179. Nelson SJ, Li Y, Lupo JM, Olson M, Crane JC, Molinaro A, Roy R, Clarke J, Butowski N, Prados M, Cha S, Chang SM. PMID: 27535746; PMCID: PMC5069332.
      View in: PubMed   Mentions: 14     Fields:    Translation:Humans
    27. Evaluating metabolites in patients with major depressive disorder who received mindfulness-based cognitive therapy and healthy controls using short echo MRSI at 7 Tesla. MAGMA. 2016 Jun; 29(3):523-33. Li Y, Jakary A, Gillung E, Eisendrath S, Nelson SJ, Mukherjee P, Luks T. PMID: 26861048; PMCID: PMC4891376.
      View in: PubMed   Mentions: 13     Fields:    Translation:Humans
    28. Association of Diffusion and Anatomic Imaging Parameters with Survival for Patients with Newly Diagnosed Glioblastoma Participating in Two Different Clinical Trials. Transl Oncol. 2015 Dec; 8(6):446-55. Wen Q, Jalilian L, Lupo JM, Li Y, Roy R, Molinaro AM, Chang SM, Prados M, Butowski N, Clarke J, Nelson SJ. PMID: 26692525; PMCID: PMC4700297.
      View in: PubMed   Mentions: 1  
    29. Imaging tumor metabolism using in vivo magnetic resonance spectroscopy. Cancer J. 2015 Mar-Apr; 21(2):123-8. Li Y, Park I, Nelson SJ. PMID: 25815853; PMCID: PMC4429803.
      View in: PubMed   Mentions: 21     Fields:    Translation:HumansAnimals
    30. Short-echo three-dimensional H-1 MR spectroscopic imaging of patients with glioma at 7 Tesla for characterization of differences in metabolite levels. J Magn Reson Imaging. 2015 May; 41(5):1332-41. Li Y, Larson P, Chen AP, Lupo JM, Ozhinsky E, Kelley D, Chang SM, Nelson SJ. PMID: 24935758; PMCID: PMC4269580.
      View in: PubMed   Mentions: 26     Fields:    Translation:Humans
    31. Strategies for rapid in vivo 1H and hyperpolarized 13C MR spectroscopic imaging. J Magn Reson. 2013 Apr; 229:187-97. Nelson SJ, Ozhinsky E, Li Y, Park Iw, Crane J. PMID: 23453759; PMCID: PMC3808990.
      View in: PubMed   Mentions: 21     Fields:    Translation:HumansAnimals
    32. Survival analysis in patients with newly diagnosed glioblastoma using pre- and postradiotherapy MR spectroscopic imaging. Neuro Oncol. 2013 May; 15(5):607-17. Li Y, Lupo JM, Parvataneni R, Lamborn KR, Cha S, Chang SM, Nelson SJ. PMID: 23393206; PMCID: PMC3635514.
      View in: PubMed   Mentions: 38     Fields:    Translation:Humans
    33. Advances in ultra-high field MRI for the clinical management of patients with brain tumors. Curr Opin Neurol. 2011 Dec; 24(6):605-15. Lupo JM, Li Y, Hess CP, Nelson SJ. PMID: 22045220.
      View in: PubMed   Mentions: 17     Fields:    Translation:HumansCells
    34. Serial analysis of imaging parameters in patients with newly diagnosed glioblastoma multiforme. Neuro Oncol. 2011 May; 13(5):546-57. Li Y, Lupo JM, Polley MY, Crane JC, Bian W, Cha S, Chang S, Nelson SJ. PMID: 21297128; PMCID: PMC3093330.
      View in: PubMed   Mentions: 25     Fields:    Translation:Humans
    35. Comparison of T(1) and T(2) metabolite relaxation times in glioma and normal brain at 3T. J Magn Reson Imaging. 2008 Aug; 28(2):342-50. Li Y, Srinivasan R, Ratiney H, Lu Y, Chang SM, Nelson SJ. PMID: 18666155; PMCID: PMC3033227.
      View in: PubMed   Mentions: 34     Fields:    Translation:Humans
    36. Three-dimensional J-resolved H-1 magnetic resonance spectroscopic imaging of volunteers and patients with brain tumors at 3T. Magn Reson Med. 2007 Nov; 58(5):886-92. Li Y, Chen AP, Crane JC, Chang SM, Vigneron DB, Nelson SJ. PMID: 17969114.
      View in: PubMed   Mentions: 10     Fields:    Translation:Humans
    37. Considerations in applying 3D PRESS H-1 brain MRSI with an eight-channel phased-array coil at 3 T. Magn Reson Imaging. 2006 Dec; 24(10):1295-302. Li Y, Osorio JA, Ozturk-Isik E, Chen AP, Xu D, Crane JC, Cha S, Chang S, Berger MS, Vigneron DB, Nelson SJ. PMID: 17145400.
      View in: PubMed   Mentions: 23     Fields:    Translation:Humans
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