Research Funding

  • September 10, 2021 - June 30, 2025 - Editing CG and non-CG DNA methylation to identify genomic elements that regulate gene expression , Principal Investigator . Sponsor: NIH, Sponsor Award ID: R01HG012227
  • September 30, 2018 - May 31, 2023 - A GENETIC INTERACTION MAP OF THE HUMAN NUCLEUS , Principal Investigator . Sponsor: NIH, Sponsor Award ID: DP2CA239597
  • May 1, 2020 - April 30, 2021 - Drug target identification using CRISPRi/a screening , Co-Principal Investigator . Sponsor: NIH, Sponsor Award ID: R41GM137625
  • April 1, 2017 - March 31, 2020 - A functional genomics approach to determine the mechanism of cellular response to new anti-cancer , Principal Investigator . Sponsor: NIH, Sponsor Award ID: R00CA204602
  • April 1, 2016 - March 31, 2017 - A functional genomics approach to determine the mechanism of cellular response to new anti-cancer drugs , Principal Investigator . Sponsor: NIH, Sponsor Award ID: K99CA204602

Education

University of California, Los Angeles, BS, 06/2006, Microbiology, Immunology, and Molecular Genetics
Massachusetts Institute of Technology, PhD, 05/2012, Biology
University of California, San Francisco, Postdoctoral, 4/2017, Cell Biology, Synthetic Biology

Honors & Awards

  • 2010
    Virginia and Daniel K. Ludwig Graduate Research Fellow
  • 2013
    Leukemia and Lymphoma Society Postdoctoral Fellow
  • 2016
    NIH/NCI Pathway to Independence Award
  • 2018
    Gabrielle's Angel Foundation Medical Research Fellow
  • 2018
    NIH Director's New Innovator Award
  • 2019-2023
    Pew-Stewart Scholar for Cancer Research
  • 2020
    AAAS / Martin and Rose Wachtel Cancer Research Award
  • 2022-2023
    Prostate Cancer Foundation Challenge Award
  • 2022-2027
    CRUK/NCI Cancer Grand Challenge Award
  • 2022-2027
    NIH NHGRI UM1 HG012660

Selected Publications

  1. Liu T, Zhang M, Farsh T, Li H, Kishishita A, Barpanda A, Leung SG, Zhu J, Jung H, Hua JT, Zhu X, Kim AB, Goo YA, Son M, Kim J, Subramanian A, Sjöström M, Fuh KC, Chapman JS, Carnevale J, Gilbert LA, Lakkaraju A, Bruno PM, Quigley D, Wiita AP, Feng FY, DeSelm CJ. Exploitable mechanisms of antibody and CAR mediated macrophage cytotoxicity. Nat Commun. 2025 Jul 01; 16(1):5616.  View on PubMed
  2. Roohani YH, Hua TJ, Tung PY, Bounds LR, Yu FB, Dobin A, Teyssier N, Adduri A, Woodrow A, Plosky BS, Mehta R, Hsu B, Sullivan J, Ricci-Tam C, Li N, Kazaks J, Gilbert LA, Konermann S, Hsu PD, Goodarzi H, Burke DP Virtual Cell Challenge: Toward a Turing test for the virtual cell.  View on PubMed
  3. Li H, Melnyk JE, Fu BXH, Shrestha R, Zhang M, Sjöström M, Feng S, Anderson JA, Han W, Chesner LN, Shin HJ, Farsh T, Suarez HJ, Nath S, Chou J, Das R, Egusa EA, Zhu J, Winters A, Maheshwari A, Hua JT, Alshalalfa M, Chen WS, Calvert M, Davicioni E, Kishishita A, Barpanda A, Liu T, Wiita AP, Stohr BA, Siddiqui J, Huang B, Small EJ, Shokat KM, Nelson P, Quigley DA, Wasmuth EV, Gilbert LA, Feng FY. Genome-wide CRISPR screens identify PTGES3 as a novel AR modulator. bioRxiv. 2025 May 31.  View on PubMed
  4. Yi H, Zhang S, Swinderman J, Wang Y, Kanakaveti V, Hung KL, Wong IT, Srinivasan S, Curtis EJ, Bhargava-Shah A, Li R, Jones MG, Luebeck J, Zhao Y, Belk JA, Kraft K, Shi Q, Yan X, Pritchard SK, Liang FM, Felsher DW, Gilbert LA, Bafna V, Mischel PS, Chang HY EcDNA-borne PVT1 fusion stabilizes oncogenic mRNAs.  View on PubMed
  5. Naara S, Cui Z, Izgutdina A, VanLandingham NK, Nazarenko A, Woerner LC, Hua Fu BX, Gilbert LA, Johnson DE, Grandis JR Neddylation as a target in PIK3CA-mutated head and neck cancer.  View on PubMed
  6. Chesner LN, Polesso F, Graff JN, Hawley JE, Smith AK, Lundberg A, Das R, Shenoy T, Sjöström M, Zhao F, Hu YM, Linder S, Chen WS, Hawkins RM, Shrestha R, Zhu X, Foye A, Li H, Kim LM, Bhalla M, O'loughlin T, Kuzuoglu-Ozturk D, Hua JT, Badura ML, Wilkinson S, Trostel SY, Bergman AM, Ruggero D, Drake CG, Sowalsky AG, Fong L, Cooperberg MR, Zwart W, Guan X, Ashworth A, Xia Z, Quigley DA, Gilbert LA, Feng FY, Moran AE. Androgen Receptor Inhibition Increases MHC Class I Expression and Improves Immune Response in Prostate Cancer. Cancer Discov. 2025 Mar 03; 15(3):481-494.  View on PubMed
  7. Lin K, Zou C, Hubbard A, Sengelmann S, Goudy L, Wang IC, Sharma R, Pak J, Foster K, Ozawa T, de Groot JF, Phillips J, Vasudevan HN, Raleigh DR, Marson A, Murthy N, Gilbert LA, Berger MS, Liu SJ. Multiplexed epigenetic memory editing using CRISPRoff sensitizes glioblastoma to chemotherapy. Neuro Oncol. 2025 Feb 25.  View on PubMed
  8. Adli M, Przybyla L, Burdett T, Burridge PW, Cacheiro P, Chang HY, Engreitz JM, Gilbert LA, Greenleaf WJ, Hsu L, Huangfu D, Hung LH, Kundaje A, Li S, Parkinson H, Qiu X, Robson P, Schürer SC, Shojaie A, Skarnes WC, Smedley D, Studer L, Sun W, Vidovic D, Vierbuchen T, White BS, Yeung KY, Yue F, Zhou T, MorPhiC Consortium. MorPhiC Consortium: towards functional characterization of all human genes. Nature. 2025 Feb; 638(8050):351-359.  View on PubMed
  9. Fu BXH, Xu A, Li H, Johnson DE, Grandis JR, Gilbert LA. Loss of Fanconi anemia proteins causes a reliance on lysosomal exocytosis. bioRxiv. 2025 Jan 24.  View on PubMed
  10. Umhoefer JM, Arce MM, Whalen S, Dajani R, Goudy L, Kasinathan S, Belk JA, Zhang W, Zhou R, Subramanya S, Hernandez R, Tran C, Kirthivasan N, Freimer JW, Mowery CT, Nguyen V, Ota M, Gowen BG, Simeonov DR, Curie GL, Li Z, Corn JE, Chang HY, Gilbert LA, Satpathy AT, Pollard KS, Marson A. Cis-Regulatory Element and Transcription Factor Circuitry Required for Cell-Type Specific Expression of FOXP3. bioRxiv. 2025 Jan 14.  View on PubMed
  11. Katie Lin, Christopher Zou, Laine Goudy, Rohit Sharma, Nicholas O Stevers, Joanna Pak, Kyla Foster, Emily Payne, Anny Shai, Tomoko Ozawa, John F de Groot, Harish Vasudevan, Joanna J Phillips, David R Raleigh, Joseph F Costello, Niren Murthy, Luke A Gilbert, Mitchel Berger, S John Liu. EXTH-68. EPIGENETIC EDITING BY MRNA-BASED CRISPROFF ENABLES FLEXIBLE AND DURABLE TARGETING OF GLIOBLASTOMA DRIVERS MGMT AND TERT. Neuro-Oncology. 2024 Nov 11; 26(Supplement_8):viii252-viii252.  View on PubMed
  12. Timothy T. Ferng, Samantha M. Pintar, Vanessa E. Kennedy, Shaheen Kabir, Theodore C. Tarver, Veronica Steri, Paul Phojanakong, Juwita Hübner, Carolina E. Morales, Jose M. Rivera, Aaron C. Logan, Benjamin Braun, Elliot Stieglitz, Luke A. Gilbert, Catherine C. Smith. CDK8 Inhibition Represses Monocyte-like Gene Expression in Acute Myeloid Leukemia Cells and Antagonizes In Vivo Resistance to FLT3 Inhibition. Blood. 2024 Nov 5; 144(Supplement 1):723-723.  View on PubMed
  13. Berquez M, Li AL, Luy MA, Venida AC, O'Loughlin T, Rademaker G, Barpanda A, Hu J, Yano J, Wiita A, Gilbert LA, Bruno PM, Perera RM. A multi-subunit autophagic capture complex facilitates degradation of ER stalled MHC-I in pancreatic cancer. bioRxiv. 2024 Oct 29.  View on PubMed
  14. Ge AY, Arab A, Dai R, Navickas A, Fish L, Garcia K, Asgharian H, Goudreau J, Lee S, Keenan K, Pappalardi MB, McCabe MT, Przybyla L, Goodarzi H, Gilbert LA. A multiomics approach reveals RNA dynamics promote cellular sensitivity to DNA hypomethylation. Sci Rep. 2024 10 29; 14(1):25940.  View on PubMed
  15. Wilson CM, Pommier GC, Richman DD, Sambold N, Hussmann JA, Weissman JS, Gilbert LA. Combinatorial effector targeting (COMET) for transcriptional modulation and locus-specific biochemistry. bioRxiv. 2024 Oct 28.  View on PubMed
  16. J Liu, N Majd, C Zou, K Mirchia, J Pak, K Foster, K Lin, T Casey-Clyde, K Seo, S Pan, E Payne, H Vasudevan, T Ozawa, M Berger, J de Groot, W Weiss, L Gilbert, D Raleigh. OS07.1.A INTEGRATIVE SINGLE NUCLEI, SPATIAL, AND FUNCTIONAL GENOMIC ANALYSES REVEAL DNA-PK DRIVES GLIOBLASTOMA RADIORESISTANCE THROUGH TUMOR CELLS AND THE MYELOID MICROENVIRONMENT. Neuro-Oncology. 2024 Oct 17; 26(Supplement_5):v22-v23.  View on PubMed
  17. Liu SJ, Zou C, Pak J, Morse A, Pang D, Casey-Clyde T, Borah AA, Wu D, Seo K, O'Loughlin T, Lim DA, Ozawa T, Berger MS, Kamber RA, Weiss WA, Raleigh DR, Gilbert LA. In vivo perturb-seq of cancer and microenvironment cells dissects oncologic drivers and radiotherapy responses in glioblastoma. Genome Biol. 2024 Oct 07; 25(1):256.  View on PubMed
  18. S. Wang, V. Böhnert, A. Joseph, V. Sudaryo, G. Skariah, J. Swinderman, F. Yu, V. Subramanyam, D. Wolf, X. Lyu, L. Gilbert, L. van’t Veer, H. Goodarzi, L. Li. 261 (PB249): ENPP1 is an innate immune checkpoint of the anticancer cGAMPSTING pathway in breast cancer. European Journal of Cancer. 2024 Oct 1; 211:114778.  View on PubMed
  19. Woo BJ, Moussavi-Baygi R, Karner H, Karimzadeh M, Yousefi H, Lee S, Garcia K, Joshi T, Yin K, Navickas A, Gilbert LA, Wang B, Asgharian H, Feng FY, Goodarzi H. Integrative identification of non-coding regulatory regions driving metastatic prostate cancer. Cell Rep. 2024 09 24; 43(9):114764.  View on PubMed
  20. Khoroshkin M, Asarnow D, Zhou S, Navickas A, Winters A, Goudreau J, Zhou SK, Yu J, Palka C, Fish L, Borah A, Yousefi K, Carpenter C, Ansel KM, Cheng Y, Gilbert LA, Goodarzi H. A systematic search for RNA structural switches across the human transcriptome. Nat Methods. 2024 Sep; 21(9):1634-1645.  View on PubMed

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