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Jian Shi, PhD

Title(s)Associate Professor, Neurology
SchoolSchool of Medicine
Address35 Medical Center Way, #2-346
San Francisco CA 94143
Phone415-221-4810 ext. 26493
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    Other Positions
    Title(s)UCSF Weill Institute for Neurosciences


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    UT Southwestern Medical Center, Dallas, TXpost-doctor2006Neuroscience and Developmental Biology

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    My research focuses on unraveling the complexities of Alzheimer's disease, brain injuries, and brain tumors. By integrating computational approaches, such as machine learning, with molecular and cellular techniques and animal models, we aim to decode disease mechanisms, identify novel diagnostic biomarkers, and explore new therapeutic targets. Our multidisciplinary work bridges the gap between data-driven discovery and biological experiments to combat these challenging neurological disorders.

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    Collapse selected 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. MicroRNAs as Potential Biomarkers for Alzheimer's Disease in Women. Genes (Basel). 2025 Aug 11; 16(8). Huang S, Zhong L, Zheng L, Shi J. PMID: 40869991; PMCID: PMC12386123.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    2. A Small-Molecule TrkB/TrkC Ligand Promotes Neurogenesis and Behavioral Recovery Following Traumatic Brain Injury. Neurotrauma Rep. 2025; 6(1):195-209. Shi J, Yang T, Li Y, Zhong L, Longo FM, Massa SM. PMID: 40129897; PMCID: PMC11931105.
      View in: PubMed   Mentions:
    3. Early 2-Factor Transcription Factors Associated with Progression and Recurrence in Bevacizumab-Responsive Subtypes of Glioblastoma. Cancers (Basel). 2024 Jul 14; 16(14). Shi J. PMID: 39061176; PMCID: PMC11275000.
      View in: PubMed   Mentions: 1  
    4. Blood Markers Show Neural Consequences of LongCOVID-19. Cells. 2024 03 08; 13(6). Tang N, Kido T, Shi J, McCafferty E, Ford JM, Dal Bon K, Pulliam L. PMID: 38534322; PMCID: PMC10969290.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    5. Comparative Insight into Microglia/Macrophages-Associated Pathways in Glioblastoma and Alzheimer's Disease. Int J Mol Sci. 2023 Dec 19; 25(1). Shi J, Huang S. PMID: 38203185; PMCID: PMC10778632.
      View in: PubMed   Mentions: 12     Fields:    Translation:HumansCells
    6. Sexual dimorphism in immune cell responses following stroke. Neurobiol Dis. 2022 10 01; 172:105836. Liu J, Sato Y, Falcone-Juengert J, Kurisu K, Shi J, Yenari MA. PMID: 35932990.
      View in: PubMed   Mentions: 9     Fields:    Translation:Humans
    7. Machine learning and bioinformatics approaches for classification and clinical detection of bevacizumab responsive glioblastoma subtypes based on miRNA expression. Sci Rep. 2022 May 23; 12(1):8685. Shi J. PMID: 35606527; PMCID: PMC9126877.
      View in: PubMed   Mentions: 4     Fields:    Translation:Humans
    8. Triggering receptor expressed on myeloid cells-2 expression in the brain is required for maximal phagocytic activity and improved neurological outcomes following experimental stroke. J Cereb Blood Flow Metab. 2019 10; 39(10):1906-1918. Kurisu K, Zheng Z, Kim JY, Shi J, Kanoke A, Liu J, Hsieh CL, Yenari MA. PMID: 30523715; PMCID: PMC6775587.
      View in: PubMed   Mentions: 42     Fields:    Translation:AnimalsCells
    9. MicroRNAs as biomarkers for human glioblastoma: progress and potential. Acta Pharmacol Sin. 2018 Sep; 39(9):1405-1413. Huang SW, Ali ND, Zhong L, Shi J. PMID: 29417946; PMCID: PMC6289388.
      View in: PubMed   Mentions: 53     Fields:    Translation:HumansCells
    10. Considering Exosomal miR-21 as a Biomarker for Cancer. J Clin Med. 2016 Mar 29; 5(4). Shi J. PMID: 27043643; PMCID: PMC4850465.
      View in: PubMed   Mentions: 61  
    11. A small molecule p75(NTR) ligand protects neurogenesis after traumatic brain injury. Stem Cells. 2013 Nov; 31(11):2561-74. Shi J, Longo FM, Massa SM. PMID: 23940017.
      View in: PubMed   Mentions: 41     Fields:    Translation:AnimalsCells
    12. Beneficial effects of minocycline and botulinum toxin-induced constraint physical therapy following experimental traumatic brain injury. Neurorehabil Neural Repair. 2013 Nov-Dec; 27(9):889-99. Lam TI, Bingham D, Chang TJ, Lee CC, Shi J, Wang D, Massa S, Swanson RA, Liu J. PMID: 23778701.
      View in: PubMed   Mentions: 26     Fields:    Translation:AnimalsCells
    13. Microglial activation induced by brain trauma is suppressed by post-injury treatment with a PARP inhibitor. J Neuroinflammation. 2012 Feb 15; 9:31. d'Avila JC, Lam TI, Bingham D, Shi J, Won SJ, Kauppinen TM, Massa S, Liu J, Swanson RA. PMID: 22335939; PMCID: PMC3298794.
      View in: PubMed   Mentions: 81     Fields:    Translation:AnimalsCells
    14. Efficacy of reductive ventricular osmotherapy in a swine model of traumatic brain injury. Neurosurgery. 2012 Feb; 70(2):445-54; discussion 455. Odland RM, Venugopal S, Borgos J, Coppes V, McKinney AM, Rockswold G, Shi J, Panter S. PMID: 21826032; PMCID: PMC3262110.
      View in: PubMed   Mentions: 2     Fields:    Translation:Animals
    15. Small molecule BDNF mimetics activate TrkB signaling and prevent neuronal degeneration in rodents. J Clin Invest. 2010 May; 120(5):1774-85. Massa SM, Yang T, Xie Y, Shi J, Bilgen M, Joyce JN, Nehama D, Rajadas J, Longo FM. PMID: 20407211; PMCID: PMC2860903.
      View in: PubMed   Mentions: 190     Fields:    Translation:AnimalsCells
    16. The basic helix-loop-helix transcription factor olig2 is critical for reactive astrocyte proliferation after cortical injury. J Neurosci. 2008 Oct 22; 28(43):10983-9. Chen Y, Miles DK, Hoang T, Shi J, Hurlock E, Kernie SG, Lu QR. PMID: 18945906; PMCID: PMC2631240.
      View in: PubMed   Mentions: 64     Fields:    Translation:AnimalsCells
    17. Injury-induced neurogenesis in Bax-deficient mice: evidence for regulation by voltage-gated potassium channels. Eur J Neurosci. 2007 Jun; 25(12):3499-512. Shi J, Miles DK, Orr BA, Massa SM, Kernie SG. PMID: 17610570.
      View in: PubMed   Mentions: 16     Fields:    Translation:AnimalsCells
    18. Bax limits adult neural stem cell persistence through caspase and IP3 receptor activation. Cell Death Differ. 2005 Dec; 12(12):1601-12. Shi J, Parada LF, Kernie SG. PMID: 15947791.
      View in: PubMed   Mentions: 14     Fields:    Translation:AnimalsCells
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