John Liu, MD, PhD

Title(s)Resident, Radiation Oncology
SchoolSchool of Medicine
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ORCID ORCID Icon0000-0003-1042-0191 Additional info
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    Collapse Biography 
    Collapse Education and Training
    Harvard University, Cambridge, MAAB05/2011Chemical and Physical Biology
    University of California, San Francisco, CAPhD03/2017Biomedical Sciences
    University of California, San Francisco, CA MD06/2019Medicine
    Kaiser Permanente, San Francisco, CA06/2020Internal Medicine Prelim
    University of California, San Francisco, CARadiation Oncology
    Collapse Awards and Honors
    University of California, San Francisco2020  - 2024ABR Holman Pathway
    University of California, San Francisco2021  - 2022BTC SPORE Career Enhancement Award
    University of California, San Francisco2022  - 2023Catalyst Award
    University of California, San Francisco2022  - 2023The Sontag Foundation Conquer Cancer Young Investigator Award

    Collapse Research 
    Collapse Research Activities and Funding
    Regulation of neurogenesis by the novel long non-coding RNA Pnky
    NIH F30NS092319Jul 1, 2015 - Jun 30, 2017
    Role: Principal Investigator

    Collapse ORNG Applications 
    Collapse Featured Publications

    Collapse Featured Content 
    Collapse Twitter

    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.
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    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. Meningioma DNA methylation groups identify biological drivers and therapeutic vulnerabilities. Nat Genet. 2022 05; 54(5):649-659. Choudhury A, Magill ST, Eaton CD, Prager BC, Chen WC, Cady MA, Seo K, Lucas CG, Casey-Clyde TJ, Vasudevan HN, Liu SJ, Villanueva-Meyer JE, Lam TC, Pu JK, Li LF, Leung GK, Swaney DL, Zhang MY, Chan JW, Qiu Z, Martin MV, Susko MS, Braunstein SE, Bush NAO, Schulte JD, Butowski N, Sneed PK, Berger MS, Krogan NJ, Perry A, Phillips JJ, Solomon DA, Costello JF, McDermott MW, Rich JN, Raleigh DR. PMID: 35534562; PMCID: PMC9374001.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansCells
    2. Resection with intraoperative cesium-131 brachytherapy as salvage therapy for recurrent brain tumors. J Neurosurg. 2022 Jan 21; 1-7. Chen WC, Lafreniere M, Phuong C, Liu SJ, Baal JD, Lometti M, Morin O, Ziemer B, Vasudevan HN, Lucas CG, Hervey-Jumper SL, Theodosopoulos PV, Magill ST, Fogh S, Nakamura JL, Boreta L, Sneed PK, McDermott MW, Raleigh DR, Braunstein SE. PMID: 35061986.
      View in: PubMed   Mentions:    Fields:    
    3. Long noncoding RNAs in cancer metastasis. Nat Rev Cancer. 2021 07; 21(7):446-460. Liu SJ, Dang HX, Lim DA, Feng FY, Maher CA. PMID: 33953369; PMCID: PMC8288800.
      View in: PubMed   Mentions: 67     Fields:    Translation:HumansAnimals
    4. miRNA-independent function of long noncoding pri-miRNA loci. Proc Natl Acad Sci U S A. 2021 03 30; 118(13). He D, Wu D, Muller S, Wang L, Saha P, Ahanger SH, Liu SJ, Cui M, Hong SJ, Jain M, Olson HE, Akeson M, Costello JF, Diaz A, Lim DA. PMID: 33758101; PMCID: PMC8020771.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCells
    5. Genome-Scale Perturbation of Long Noncoding RNA Expression Using CRISPR Interference. Methods Mol Biol. 2021; 2254:323-338. Liu SJ, Horlbeck MA, Weissman JS, Lim DA. PMID: 33326085; PMCID: PMC7917014.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    6. CRISPRi-based radiation modifier screen identifies long non-coding RNA therapeutic targets in glioma. Genome Biol. 2020 03 31; 21(1):83. Liu SJ, Malatesta M, Lien BV, Saha P, Thombare SS, Hong SJ, Pedraza L, Koontz M, Seo K, Horlbeck MA, He D, Birk HS, Jain M, Olsen HE, Akeson M, Weissman JS, Monje M, Gupta N, Raleigh DR, Ullian EM, Lim DA. PMID: 32234056; PMCID: PMC7110660.
      View in: PubMed   Mentions: 36     Fields:    Translation:HumansCells
    7. Fitness effects of CRISPR/Cas9-targeting of long noncoding RNA genes. Nat Biotechnol. 2020 05; 38(5):573-576. Horlbeck MA, Liu SJ, Chang HY, Lim DA, Weissman JS. PMID: 32094656; PMCID: PMC8128075.
      View in: PubMed   Mentions: 11     Fields:    Translation:HumansCells
    8. Multiplatform Molecular Profiling Reveals Epigenomic Intratumor Heterogeneity in Ependymoma. Cell Rep. 2020 02 04; 30(5):1300-1309.e5. Liu SJ, Magill ST, Vasudevan HN, Hilz S, Villanueva-Meyer JE, Lastella S, Daggubati V, Spatz J, Choudhury A, Orr BA, Demaree B, Seo K, Ferris SP, Abate AR, Oberheim Bush NA, Bollen AW, McDermott MW, Costello JF, Raleigh DR. PMID: 32023450; PMCID: PMC7313374.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansCells
    9. Outer Radial Glia-like Cancer Stem Cells Contribute to Heterogeneity of Glioblastoma. Cell Stem Cell. 2020 01 02; 26(1):48-63.e6. Bhaduri A, Di Lullo E, Jung D, Müller S, Crouch EE, Espinosa CS, Ozawa T, Alvarado B, Spatazza J, Cadwell CR, Wilkins G, Velmeshev D, Liu SJ, Malatesta M, Andrews MG, Mostajo-Radji MA, Huang EJ, Nowakowski TJ, Lim DA, Diaz A, Raleigh DR, Kriegstein AR. PMID: 31901251; PMCID: PMC7029801.
      View in: PubMed   Mentions: 63     Fields:    Translation:HumansCells
    10. The Long Noncoding RNA Pnky Is a Trans-acting Regulator of Cortical Development In Vivo. Dev Cell. 2019 05 20; 49(4):632-642.e7. Andersen RE, Hong SJ, Lim JJ, Cui M, Harpur BA, Hwang E, Delgado RN, Ramos AD, Liu SJ, Blencowe BJ, Lim DA. PMID: 31112699; PMCID: PMC6556063.
      View in: PubMed   Mentions: 17     Fields:    Translation:AnimalsCells
    11. Modulating the expression of long non-coding RNAs for functional studies. EMBO Rep. 2018 12; 19(12). Liu SJ, Lim DA. PMID: 30467236; PMCID: PMC6280642.
      View in: PubMed   Mentions: 24     Fields:    Translation:HumansAnimals
    12. Reirradiation and PD-1 inhibition with nivolumab for the treatment of recurrent diffuse intrinsic pontine glioma: a single-institution experience. J Neurooncol. 2018 Dec; 140(3):629-638. Kline C, Liu SJ, Duriseti S, Banerjee A, Nicolaides T, Raber S, Gupta N, Haas-Kogan D, Braunstein S, Mueller S. PMID: 30206764.
      View in: PubMed   Mentions: 12     Fields:    Translation:Humans
    13. Promoter of lncRNA Gene PVT1 Is a Tumor-Suppressor DNA Boundary Element. Cell. 2018 05 31; 173(6):1398-1412.e22. Cho SW, Xu J, Sun R, Mumbach MR, Carter AC, Chen YG, Yost KE, Kim J, He J, Nevins SA, Chin SF, Caldas C, Liu SJ, Horlbeck MA, Lim DA, Weissman JS, Curtis C, Chang HY. PMID: 29731168; PMCID: PMC5984165.
      View in: PubMed   Mentions: 176     Fields:    Translation:HumansAnimalsCells
    14. Single-cell profiling of human gliomas reveals macrophage ontogeny as a basis for regional differences in macrophage activation in the tumor microenvironment. Genome Biol. 2017 Dec 20; 18(1):234. Müller S, Kohanbash G, Liu SJ, Alvarado B, Carrera D, Bhaduri A, Watchmaker PB, Yagnik G, Di Lullo E, Malatesta M, Amankulor NM, Kriegstein AR, Lim DA, Aghi M, Okada H, Diaz A. PMID: 29262845; PMCID: PMC5738907.
      View in: PubMed   Mentions: 206     Fields:    Translation:HumansAnimalsCells
    15. Spatiotemporal gene expression trajectories reveal developmental hierarchies of the human cortex. Science. 2017 12 08; 358(6368):1318-1323. Nowakowski TJ, Bhaduri A, Pollen AA, Alvarado B, Mostajo-Radji MA, Di Lullo E, Haeussler M, Sandoval-Espinosa C, Liu SJ, Velmeshev D, Ounadjela JR, Shuga J, Wang X, Lim DA, West JA, Leyrat AA, Kent WJ, Kriegstein AR. PMID: 29217575; PMCID: PMC5991609.
      View in: PubMed   Mentions: 248     Fields:    Translation:HumansCells
    16. CRISPRi-based genome-scale identification of functional long noncoding RNA loci in human cells. Science. 2017 01 06; 355(6320). Liu SJ, Horlbeck MA, Cho SW, Birk HS, Malatesta M, He D, Attenello FJ, Villalta JE, Cho MY, Chen Y, Mandegar MA, Olvera MP, Gilbert LA, Conklin BR, Chang HY, Weissman JS, Lim DA. PMID: 27980086; PMCID: PMC5394926.
      View in: PubMed   Mentions: 275     Fields:    Translation:HumansCells
    17. Single-cell sequencing maps gene expression to mutational phylogenies in PDGF- and EGF-driven gliomas. Mol Syst Biol. 2016 Nov 25; 12(11):889. Müller S, Liu SJ, Di Lullo E, Malatesta M, Pollen AA, Nowakowski TJ, Kohanbash G, Aghi M, Kriegstein AR, Lim DA, Diaz A. PMID: 27888226; PMCID: PMC5147052.
      View in: PubMed   Mentions: 47     Fields:    Translation:Humans
    18. Single-cell analysis of long non-coding RNAs in the developing human neocortex. Genome Biol. 2016 Apr 14; 17:67. Liu SJ, Nowakowski TJ, Pollen AA, Lui JH, Horlbeck MA, Attenello FJ, He D, Weissman JS, Kriegstein AR, Diaz AA, Lim DA. PMID: 27081004; PMCID: PMC4831157.
      View in: PubMed   Mentions: 144     Fields:    Translation:HumansCells
    19. Molecular identity of human outer radial glia during cortical development. Cell. 2015 Sep 24; 163(1):55-67. Pollen AA, Nowakowski TJ, Chen J, Retallack H, Sandoval-Espinosa C, Nicholas CR, Shuga J, Liu SJ, Oldham MC, Diaz A, Lim DA, Leyrat AA, West JA, Kriegstein AR. PMID: 26406371; PMCID: PMC4583716.
      View in: PubMed   Mentions: 294     Fields:    Translation:HumansAnimalsCells
    20. The long noncoding RNA Pnky regulates neuronal differentiation of embryonic and postnatal neural stem cells. Cell Stem Cell. 2015 Apr 02; 16(4):439-447. Ramos AD, Andersen RE, Liu SJ, Nowakowski TJ, Hong SJ, Gertz C, Salinas RD, Zarabi H, Kriegstein AR, Lim DA. PMID: 25800779; PMCID: PMC4388801.
      View in: PubMed   Mentions: 159     Fields:    Translation:HumansAnimalsCells
    21. Activation of neuronal gene expression by the JMJD3 demethylase is required for postnatal and adult brain neurogenesis. Cell Rep. 2014 Sep 11; 8(5):1290-9. Park DH, Hong SJ, Salinas RD, Liu SJ, Sun SW, Sgualdino J, Testa G, Matzuk MM, Iwamori N, Lim DA. PMID: 25176653; PMCID: PMC4201382.
      View in: PubMed   Mentions: 59     Fields:    Translation:HumansAnimalsCells
    22. Pluripotency factors in embryonic stem cells regulate differentiation into germ layers. Cell. 2011 Jun 10; 145(6):875-89. Thomson M, Liu SJ, Zou LN, Smith Z, Meissner A, Ramanathan S. PMID: 21663792; PMCID: PMC5603300.
      View in: PubMed   Mentions: 235     Fields:    Translation:AnimalsCells
    23. Logic integration of mRNA signals by an RNAi-based molecular computer. Nucleic Acids Res. 2010 May; 38(8):2692-701. Xie Z, Liu SJ, Bleris L, Benenson Y. PMID: 20194121; PMCID: PMC2860122.
      View in: PubMed   Mentions: 23     Fields:    Translation:AnimalsCells
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