University of California San Francisco
Helen Diller Family Comprehensive Cancer Center
Michael McManus, PhD

Michael McManus, PhD

Professor, Dept. of Microbiology and Immunology, UCSF
Vincent and Stella Coates Endowed Chair

Cancer Center Program Memberships

Cancer Genetics

Research Summary

The McManus lab studies fundamental processes relating to the regulation of gene expression. We take high-throughput approaches, analyzing hundreds of thousands to millions of experiments at once, using unique and complex libraries coupled to deep sequencing. Our systems span from cell culture to in vivo models, focusing on a broad array of disease relevant tissues. From cancer to diabetes, we develop novel technologies to help us better understand how genes are regulated and how they function in cells. We aim to uncover the dark matter of the genome, to help unravel the beautiful genomic complexity of pathways and how genes interact in development and disease.

Education

Auburn University, Auburn, Alabama, B.S., 05/1991, Horticultural Science
University of Alabama at Birmingham, Ph.D., 12/2000, Biochem & Mol Genetics
Massachusetts Institute of Technology, Postdoctoral, 12/2004, Small RNA Biology

Professional Experience

  • 2001-2004
    Postdoctoral Fellow, Center for Cancer Research, MIT Cancer Research Institute
  • 2004-2010
    Assistant Professor, Dept of Microbiology and Immunology/Diabetes Center, UCSF
  • 2004-present
    UCSF Core Director, ViraCore
  • 2008-present
    UCSF Director, WM Keck Center for Noncoding RNA
  • 2010-present
    Associate Professor, Dept of Microbiology and Immunology/Diabetes Center, UCSF
  • 2012-present
    UCSF Vincent and Stella Coates Endowed Chair 
  • 2016-present
    Professor, Dept of Microbiology and Immunology/Diabetes Center, UCSF

Honors & Awards

  • 2002
    Cancer Research Institute (CRI) Fellowship
  • 2003
    MIT School of Science Spot Appreciation Award
  • 2005
    Sandler Award in the Basic Sciences
  • 2006
    Integrative Science Award
  • 2006
    New Technologies Award
  • 2007-2010
    Deans Recognition for Excellence in Teaching
  • 2007
    WM Keck Award
  • 2009
    New Technologies Award
  • 2011
    Breakthrough Technologies Award
  • 2012
    UCSF IT Innovator Award
  • 2012
    NIH Cancer Target Discovery and Development Award
  • 2012
    Vincent and Stella Coates Endowed Chair
  • 2012, 2013
    Tom and Michelle Parker gift for stellar research
  • 2014
    NIH Illuminating the Druggable Genome Award
  • 2014
    NIH Transformative Research Award
  • 2016
    Coates Gift for Research Excellence

Selected Publications

  1. Oprea TI, Bologa CG, Brunak S, Campbell A, Gan GN, Gaulton A, Gomez SM, Guha R, Hersey A, Holmes J, Jadhav A, Jensen LJ, Johnson GL, Karlson A, Leach AR, Ma'ayan A, Malovannaya A, Mani S, Mathias SL, McManus MT, Meehan TF, von Mering C, Muthas D, Nguyen DT, Overington JP, Papadatos G, Qin J, Reich C, Roth BL, Schürer SC, Simeonov A, Sklar LA, Southall N, Tomita S, Tudose I, Ursu O, Vidovic D, Waller A, Westergaard D, Yang JJ, Zahoránszky-Köhalmi G. Unexplored therapeutic opportunities in the human genome. Nat Rev Drug Discov. 2018 Mar 23.
    View on PubMed
  2. Bulut-Karslioglu A, Macrae TA, Oses-Prieto JA, Covarrubias S, Percharde M, Ku G, Diaz A, McManus MT, Burlingame AL, Ramalho-Santos M. The Transcriptionally Permissive Chromatin State of Embryonic Stem Cells Is Acutely Tuned to Translational Output. Cell Stem Cell. 2018 Mar 01; 22(3):369-383.e8.
    View on PubMed
  3. Jee D, Yang JS, Park SM, Farmer DT, Wen J, Chou T, Chow A, McManus MT, Kharas MG, Lai EC. Dual Strategies for Argonaute2-Mediated Biogenesis of Erythroid miRNAs Underlie Conserved Requirements for Slicing in Mammals. Mol Cell. 2018 Jan 18; 69(2):265-278.e6.
    View on PubMed
  4. Boettcher M, Tian R, Blau JA, Markegard E, Wagner RT, Wu D, Mo X, Biton A, Zaitlen N, Fu H, McCormick F, Kampmann M, McManus MT. Dual gene activation and knockout screen reveals directional dependencies in genetic networks. Nat Biotechnol. 2018 Feb; 36(2):170-178.
    View on PubMed
  5. Hangauer MJ, Viswanathan VS, Ryan MJ, Bole D, Eaton JK, Matov A, Galeas J, Dhruv HD, Berens ME, Schreiber SL, McCormick F, McManus MT. Drug-tolerant persister cancer cells are vulnerable to GPX4 inhibition. Nature. 2017 11 09; 551(7679):247-250.
    View on PubMed
  6. Covarrubias S, Robinson EK, Shapleigh B, Vollmers A, Katzman S, Hanley N, Fong N, McManus MT, Carpenter S. CRISPR/Cas-based screening of long non-coding RNAs (lncRNAs) in macrophages with an NF-?B reporter. J Biol Chem. 2017 Dec 22; 292(51):20911-20920.
    View on PubMed
  7. Farmer DT, Nathan S, Finley JK, Shengyang Yu K, Emmerson E, Byrnes LE, Sneddon JB, McManus MT, Tward AD, Knox SM. Defining epithelial cell dynamics and lineage relationships in the developing lacrimal gland. Development. 2017 07 01; 144(13):2517-2528.
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  8. Farmer DT, Finley JK, Chen FY, Tarifeño-Saldivia E, McNamara NA, Knox SM, McManus MT. miR-205 is a critical regulator of lacrimal gland development. Dev Biol. 2017 07 01; 427(1):12-20.
    View on PubMed
  9. Pappalardo Z, Gambhir Chopra D, Hennings TG, Richards H, Choe J, Yang K, Baeyens L, Ang K, Chen S, Arkin M, German MS, McManus MT, Ku GM. A Whole-Genome RNA Interference Screen Reveals a Role for Spry2 in Insulin Transcription and the Unfolded Protein Response. Diabetes. 2017 06; 66(6):1703-1712.
    View on PubMed
  10. Farmer DT, McManus MT. MicroRNAs in ectodermal appendages. Curr Opin Genet Dev. 2017 Apr; 43:61-66.
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  11. Inoue F, Kircher M, Martin B, Cooper GM, Witten DM, McManus MT, Ahituv N, Shendure J. A systematic comparison reveals substantial differences in chromosomal versus episomal encoding of enhancer activity. Genome Res. 2017 01; 27(1):38-52.
    View on PubMed
  12. Horiuchi D, Camarda R, Zhou AY, Yau C, Momcilovic O, Balakrishnan S, Corella AN, Eyob H, Kessenbrock K, Lawson DA, Marsh LA, Anderton BN, Rohrberg J, Kunder R, Bazarov AV, Yaswen P, McManus MT, Rugo HS, Werb Z, Goga A. PIM1 kinase inhibition as a targeted therapy against triple-negative breast tumors with elevated MYC expression. Nat Med. 2016 11; 22(11):1321-1329.
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  13. Pua HH, Steiner DF, Patel S, Gonzalez JR, Ortiz-Carpena JF, Kageyama R, Chiou NT, Gallman A, de Kouchkovsky D, Jeker LT, McManus MT, Erle DJ, Ansel KM. MicroRNAs 24 and 27 Suppress Allergic Inflammation and Target a Network of Regulators of T Helper 2 Cell-Associated Cytokine Production. Immunity. 2016 Apr 19; 44(4):821-32.
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  14. Patton JG, Franklin JL, Weaver AM, Vickers K, Zhang B, Coffey RJ, Ansel KM, Blelloch R, Goga A, Huang B, L'Etoille N, Raffai RL, Lai CP, Krichevsky AM, Mateescu B, Greiner VJ, Hunter C, Voinnet O, McManus MT. Biogenesis, delivery, and function of extracellular RNA. J Extracell Vesicles. 2015; 4:27494.
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  15. Khan IS, Park CY, Mavropoulos A, Shariat N, Pollack JL, Barczak AJ, Erle DJ, McManus MT, Anderson MS, Jeker LT. Identification of MiR-205 As a MicroRNA That Is Highly Expressed in Medullary Thymic Epithelial Cells. PLoS One. 2015; 10(8):e0135440.
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  16. Boettcher M, McManus MT. Choosing the Right Tool for the Job: RNAi, TALEN, or CRISPR. Mol Cell. 2015 May 21; 58(4):575-85.
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  17. Integrative analysis of 111 reference human epigenomes. Nature. 2015 Feb 19; 518(7539):317-30.
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  18. Gascard P, Bilenky M, Sigaroudinia M, Zhao J, Li L, Carles A, Delaney A, Tam A, Kamoh B, Cho S, Griffith M, Chu A, Robertson G, Cheung D, Li I, Heravi-Moussavi A, Moksa M, Mingay M, Hussainkhel A, Davis B, Nagarajan RP, Hong C, Echipare L, O'Geen H, Hangauer MJ, Cheng JB, Neel D, Hu D, McManus MT, Moore R, Mungall A, Ma Y, Plettner P, Ziv E, Wang T, Farnham PJ, Jones SJ, Marra MA, Tlsty TD, Costello JF, Hirst M. Epigenetic and transcriptional determinants of the human breast. Nat Commun. 2015 Feb 18; 6:6351.
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  19. Mattis AN, Song G, Hitchner K, Kim RY, Lee AY, Sharma AD, Malato Y, McManus MT, Esau CC, Koller E, Koliwad S, Lim LP, Maher JJ, Raffai RL, Willenbring H. A screen in mice uncovers repression of lipoprotein lipase by microRNA-29a as a mechanism for lipid distribution away from the liver. Hepatology. 2015 Jan; 61(1):141-52.
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  20. Qin H, Diaz A, Blouin L, Lebbink RJ, Patena W, Tanbun P, LeProust EM, McManus MT, Song JS, Ramalho-Santos M. Systematic identification of barriers to human iPSC generation. Cell. 2014 Jul 17; 158(2):449-461.
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