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. Boettcher M, Covarrubias S, Biton A, Blau J, Wang H, Zaitlen N, McManus MT. Tracing cellular heterogeneity in pooled genetic screens via multi-level barcoding. BMC Genomics. 2019 Feb 06; 20(1):107.
    View on PubMed
  2. Oprea TI, Jan L, Johnson GL, Roth BL, Ma'ayan A, Schürer S, Shoichet BK, Sklar LA, McManus MT. Far away from the lamppost. PLoS Biol. 2018 Dec; 16(12):e3000067.
    View on PubMed
  3. Elling R, Robinson EK, Shapleigh B, Liapis SC, Covarrubias S, Katzman S, Groff AF, Jiang Z, Agarwal S, Motwani M, Chan J, Sharma S, Hennessy EJ, FitzGerald GA, McManus MT, Rinn JL, Fitzgerald KA, Carpenter S. Genetic Models Reveal cis and trans Immune-Regulatory Activities for lincRNA-Cox2. Cell Rep. 2018 Nov 06; 25(6):1511-1524.e6.
    View on PubMed
  4. Lu Y, Cao J, Napoli M, Xia Z, Zhao N, Creighton CJ, Li W, Chen X, Flores ER, McManus MT, Rosen JM. miR-205 Regulates Basal Cell Identity and Stem Cell Regenerative Potential During Mammary Reconstitution. Stem Cells. 2018 Dec; 36(12):1875-1889.
    View on PubMed
  5. Tromp AT, Van Gent M, Abrial P, Martin A, Jansen JP, De Haas CJC, Van Kessel KPM, Bardoel BW, Kruse E, Bourdonnay E, Boettcher M, McManus MT, Day CJ, Jennings MP, Lina G, Vandenesch F, Van Strijp JAG, Lebbink RJ, Haas PA, Henry T, Spaan AN. Publisher Correction: Human CD45 is an F-component-specific receptor for the staphylococcal toxin Panton-Valentine leukocidin. Nat Microbiol. 2018 Oct; 3(10):1187.
    View on PubMed
  6. Lee J, Pappalardo Z, Chopra DG, Hennings TG, Vaughn I, Lan C, Choe JJ, Ang K, Chen S, Arkin M, McManus MT, German MS, Ku GM. A Genetic Interaction Map of Insulin Production Identifies Mfi as an Inhibitor of Mitochondrial Fission. Endocrinology. 2018 09 01; 159(9):3321-3330.
    View on PubMed
  7. Tromp AT, Van Gent M, Abrial P, Martin A, Jansen JP, De Haas CJC, Van Kessel KPM, Bardoel BW, Kruse E, Bourdonnay E, Boettcher M, McManus MT, Day CJ, Jennings MP, Lina G, Vandenesch F, Van Strijp JAG, Lebbink RJ, Haas PA, Henry T, Spaan AN. Human CD45 is an F-component-specific receptor for the staphylococcal toxin Panton-Valentine leukocidin. Nat Microbiol. 2018 06; 3(6):708-717.
    View on PubMed
  8. Inoue F, Kircher M, Martin B, Cooper GM, Witten DM, McManus MT, Ahituv N, Shendure J. Corrigendum: A systematic comparison reveals substantial differences in chromosomal versus episomal encoding of enhancer activity. Genome Res. 2018 05; 28(5):766.3.
    View on PubMed
  9. Shang W, Jiang Y, Boettcher M, Ding K, Mollenauer M, Liu Z, Wen X, Liu C, Hao P, Zhao S, McManus MT, Wei L, Weiss A, Wang H. Genome-wide CRISPR screen identifies FAM49B as a key regulator of actin dynamics and T cell activation. Proc Natl Acad Sci U S A. 2018 04 24; 115(17):E4051-E4060.
    View on PubMed
  10. 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 May; 17(5):317-332.
    View on PubMed
  11. 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 May; 17(5):377.
    View on PubMed
  12. 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 03 01; 22(3):369-383.e8.
    View on PubMed
  13. 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 01 18; 69(2):265-278.e6.
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  14. 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 02; 36(2):170-178.
    View on PubMed
  15. 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.
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  16. 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 12 22; 292(51):20911-20920.
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  17. 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.
    View on PubMed
  18. 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
  19. 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
  20. Farmer DT, McManus MT. MicroRNAs in ectodermal appendages. Curr Opin Genet Dev. 2017 Apr; 43:61-66.
    View on PubMed

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