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

Experimental Therapeutics | 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. 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.
    View on PubMed
  2. 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.
    View on PubMed
  3. Boettcher M, McManus MT. Choosing the Right Tool for the Job: RNAi, TALEN, or CRISPR. Mol Cell. 2015 May 21; 58(4):575-85.
    View on PubMed
  4. Kundaje A, Meuleman W, Ernst J, Bilenky M, Yen A, Heravi-Moussavi A, Kheradpour P, Zhang Z, Wang J, Ziller MJ, Amin V, Whitaker JW, Schultz MD, Ward LD, Sarkar A, Quon G, Sandstrom RS, Eaton ML, Wu YC, Pfenning AR, Wang X, Claussnitzer M, Liu Y, Coarfa C, Harris RA, Shoresh N, Epstein CB, Gjoneska E, Leung D, Xie W, Hawkins RD, Lister R, Hong C, Gascard P, Mungall AJ, Moore R, Chuah E, Tam A, Canfield TK, Hansen RS, Kaul R, Sabo PJ, Bansal MS, Carles A, Dixon JR, Farh KH, Feizi S, Karlic R, Kim AR, Kulkarni A, Li D, Lowdon R, Elliott G, Mercer TR, Neph SJ, Onuchic V, Polak P, Rajagopal N, Ray P, Sallari RC, Siebenthall KT, Sinnott-Armstrong NA, Stevens M, Thurman RE, Wu J, Zhang B, Zhou X, Beaudet AE, Boyer LA, De Jager PL, Farnham PJ, Fisher SJ, Haussler D, Jones SJ, Li W, Marra MA, McManus MT, Sunyaev S, Thomson JA, Tlsty TD, Tsai LH, Wang W, Waterland RA, Zhang MQ, Chadwick LH, Bernstein BE, Costello JF, Ecker JR, Hirst M, Meissner A, Milosavljevic A, Ren B, Stamatoyannopoulos JA, Wang T, Kellis M. Integrative analysis of 111 reference human epigenomes. Nature. 2015 Feb 19; 518(7539):317-30.
    View on PubMed
  5. 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.
    View on PubMed
  6. 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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  7. 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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  8. van de Weijer ML, Bassik MC, Luteijn RD, Voorburg CM, Lohuis MA, Kremmer E, Hoeben RC, LeProust EM, Chen S, Hoelen H, Ressing ME, Patena W, Weissman JS, McManus MT, Wiertz EJ, Lebbink RJ. A high-coverage shRNA screen identifies TMEM129 as an E3 ligase involved in ER-associated protein degradation. Nat Commun. 2014 May 08; 5:3832.
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  9. Hangauer MJ, Carpenter S, McManus MT. Discovering the complexity of the metazoan transcriptome. Genome Biol. 2014 Apr 29; 15(4):112.
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  10. Zhao W, Pollack JL, Blagev DP, Zaitlen N, McManus MT, Erle DJ. Massively parallel functional annotation of 3' untranslated regions. Nat Biotechnol. 2014 Apr; 32(4):387-91.
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  11. Wang H, Flach H, Onizawa M, Wei L, McManus MT, Weiss A. Negative regulation of Hif1a expression and TH17 differentiation by the hypoxia-regulated microRNA miR-210. Nat Immunol. 2014 Apr; 15(4):393-401.
    View on PubMed
  12. Matheny CJ, Wei MC, Bassik MC, Donnelly AJ, Kampmann M, Iwasaki M, Piloto O, Solow-Cordero DE, Bouley DM, Rau R, Brown P, McManus MT, Weissman JS, Cleary ML. Next-generation NAMPT inhibitors identified by sequential high-throughput phenotypic chemical and functional genomic screens. Chem Biol. 2013 Nov 21; 20(11):1352-63.
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  13. Farmer DT, Shariat N, Park CY, Liu HJ, Mavropoulos A, McManus MT. Partially penetrant postnatal lethality of an epithelial specific MicroRNA in a mouse knockout. PLoS One. 2013; 8(10):e76634.
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  14. Cao H, Jheon A, Li X, Sun Z, Wang J, Florez S, Zhang Z, McManus MT, Klein OD, Amendt BA. The Pitx2:miR-200c/141:noggin pathway regulates Bmp signaling and ameloblast differentiation. Development. 2013 Aug; 140(16):3348-59.
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  15. Hangauer MJ, Vaughn IW, McManus MT. Pervasive transcription of the human genome produces thousands of previously unidentified long intergenic noncoding RNAs. PLoS Genet. 2013 Jun; 9(6):e1003569.
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  16. Blau JA, McManus MT. Renewable RNAi. Nat Biotechnol. 2013 Apr; 31(4):319-20.
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  17. Bassik MC, Kampmann M, Lebbink RJ, Wang S, Hein MY, Poser I, Weibezahn J, Horlbeck MA, Chen S, Mann M, Hyman AA, Leproust EM, McManus MT, Weissman JS. A systematic mammalian genetic interaction map reveals pathways underlying ricin susceptibility. Cell. 2013 Feb 14; 152(4):909-22.
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  18. Bronevetsky Y, Villarino AV, Eisley CJ, Barbeau R, Barczak AJ, Heinz GA, Kremmer E, Heissmeyer V, McManus MT, Erle DJ, Rao A, Ansel KM. T cell activation induces proteasomal degradation of Argonaute and rapid remodeling of the microRNA repertoire. J Exp Med. 2013 Feb 11; 210(2):417-32.
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  19. Upton JP, Wang L, Han D, Wang ES, Huskey NE, Lim L, Truitt M, McManus MT, Ruggero D, Goga A, Papa FR, Oakes SA. IRE1a cleaves select microRNAs during ER stress to derepress translation of proapoptotic Caspase-2. Science. 2012 Nov 09; 338(6108):818-22.
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  20. Ku GM, Kim H, Vaughn IW, Hangauer MJ, Myung Oh C, German MS, McManus MT. Research resource: RNA-Seq reveals unique features of the pancreatic ß-cell transcriptome. Mol Endocrinol. 2012 Oct; 26(10):1783-92.
    View on PubMed

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