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

Michael Oldham, PhD

Assistant Professor, Department of Neurological Surgery, UCSF

Cancer Center Program Memberships

Neurologic Oncology

Research Summary

I am a neuroscientist and Principal Investigator in the Department of Neurological Surgery and Brain Tumor Research Center at UCSF. The overarching goal of my research is to understand the molecular basis of cellular identity in the human brain in health and disease. We are particularly focused on glioma but are interested in other types of brain cancer as well. In pursuit of this goal, my lab develops and applies standardized approaches for deconstructing complex biological systems using novel computational and experimental strategies. My work is motivated by a simple but powerful idea: by analyzing gene coexpression relationships in heterogeneous tissue samples, it is possible to isolate robust transcriptional signatures of distinct cell types and cellular processes in silico.

Education

Duke University B.S., 1996, Psychology
University of California, Los Angeles (UCLA), Ph.D., 2009, Neuroscience
University of California, Los Angeles (UCLA), Postdoctoral, 2010, Human Genetics


Professional Experience

  • 2010-2015
    UCSF Sandler Fellow, Department of Neurology and The Eli and Edythe Broad Center of Regeneration Medicine and Stem Cell Research, UCSF
  • 2015-present
    Assistant Professor, Department of Neurological Surgery and Brain Tumor Research Center, UCSF

Honors & Awards

  • 2002-2003
    Pre-doctoral Fellowship, Neuroscience Ph.D. Program, UCLA, Los Angeles, CA
  • 2008
    Eva Kavan Prize for Excellence in Research on the Brain, Brain Research Institute, UCLA, Los
    Angeles, CA
  • 2009
    UCSF Sandler Fellow, UCSF, San Francisco, CA
  • 2010
    Travel Fellow, Winter Conference on Brain Research, Breckenridge, CO
  • 2012
    Young Investigator, Sage Commons Congress, San Francisco, CA

Selected Publications

  1. Seidel K, Marangoni P, Tang C, Houshmand B, Du W, Maas RL, Murray S, Oldham MC, Klein OD. Resolving stem and progenitor cells in the adult mouse incisor through gene co-expression analysis. Elife. 2017 May 05; 6.
    View on PubMed
  2. Raju CS, Spatazza J, Stanco A, Larimer P, Sorrells SF, Kelley KW, Nicholas CR, Paredes MF, Lui JH, Hasenstaub AR, Kriegstein AR, Alvarez-Buylla A, Rubenstein JL, Oldham MC. Secretagogin is Expressed by Developing Neocortical GABAergic Neurons in Humans but not Mice and Increases Neurite Arbor Size and Complexity. Cereb Cortex. 2017 Apr 26; 1-13.
    View on PubMed
  3. Hu JK, Du W, Shelton SJ, Oldham MC, DiPersio CM, Klein OD. An FAK-YAP-mTOR Signaling Axis Regulates Stem Cell-Based Tissue Renewal in Mice. Cell Stem Cell. 2017 Apr 18.
    View on PubMed
  4. Mitra I, Tsang K, Ladd-Acosta C, Croen LA, Aldinger KA, Hendren RL, Traglia M, Lavillaureix A, Zaitlen N, Oldham MC, Levitt P, Nelson S, Amaral DG, Herz-Picciotto I, Fallin MD, Weiss LA. Pleiotropic Mechanisms Indicated for Sex Differences in Autism. PLoS Genet. 2016 Nov; 12(11):e1006425.
    View on PubMed
  5. Lui H, Zhang J, Makinson SR, Cahill MK, Kelley KW, Huang HY, Shang Y, Oldham MC, Martens LH, Gao F, Coppola G, Sloan SA, Hsieh CL, Kim CC, Bigio EH, Weintraub S, Mesulam MM, Rademakers R, Mackenzie IR, Seeley WW, Karydas A, Miller BL, Borroni B, Ghidoni R, Farese RV, Paz JT, Barres BA, Huang EJ. Progranulin Deficiency Promotes Circuit-Specific Synaptic Pruning by Microglia via Complement Activation. Cell. 2016 May 5; 165(4):921-35.
    View on PubMed
  6. Kelley KW, Oldham MC. Transcriptional architecture of the human brain. Nat Neurosci. 2015 Nov 25; 18(12):1699-701.
    View on PubMed
  7. 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. Molecular Identity of Human Outer Radial Glia during Cortical Development. Cell. 2015 Sep 24; 163(1):55-67.
    View on PubMed
  8. Parchem RJ, Moore N, Fish JL, Parchem JG, Braga TT, Shenoy A, Oldham MC, Rubenstein JL, Schneider RA, Blelloch R. miR-302 Is Required for Timing of Neural Differentiation, Neural Tube Closure, and Embryonic Viability. Cell Rep. 2015 Aug 4; 12(5):760-73.
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  9. Lui JH, Nowakowski TJ, Pollen AA, Javaherian A, Kriegstein AR, Oldham MC. Radial glia require PDGFD-PDGFRß signalling in human but not mouse neocortex. Nature. 2014 Nov 13; 515(7526):264-8.
    View on PubMed
  10. Potts MB, Siu JJ, Price JD, Salinas RD, Cho MJ, Ramos AD, Hahn J, Margeta M, Oldham MC, Lim DA. Analysis of Mll1 deficiency identifies neurogenic transcriptional modules and Brn4 as a factor for direct astrocyte-to-neuron reprogramming. Neurosurgery. 2014 Oct; 75(4):472-82; discussion 482.
    View on PubMed
  11. Hwang WW, Salinas RD, Siu JJ, Kelley KW, Delgado RN, Paredes MF, Alvarez-Buylla A, Oldham MC, Lim DA. Distinct and separable roles for EZH2 in neurogenic astroglia. Elife. 2014; 3:e02439.
    View on PubMed
  12. Parchem RJ, Ye J, Judson RL, LaRussa MF, Krishnakumar R, Blelloch A, Oldham MC, Blelloch R. Two miRNA clusters reveal alternative paths in late-stage reprogramming. Cell Stem Cell. 2014 May 1; 14(5):617-31.
    View on PubMed
  13. Qiu H, Lee S, Shang Y, Wang WY, Au KF, Kamiya S, Barmada SJ, Finkbeiner S, Lui H, Carlton CE, Tang AA, Oldham MC, Wang H, Shorter J, Filiano AJ, Roberson ED, Tourtellotte WG, Chen B, Tsai LH, Huang EJ. ALS-associated mutation FUS-R521C causes DNA damage and RNA splicing defects. J Clin Invest. 2014 Mar; 124(3):981-99.
    View on PubMed
  14. Molofsky AV, Glasgow SM, Chaboub LS, Tsai HH, Murnen AT, Kelley KW, Fancy SP, Yuen TJ, Madireddy L, Baranzini S, Deneen B, Rowitch DH, Oldham MC. Expression profiling of Aldh1l1-precursors in the developing spinal cord reveals glial lineage-specific genes and direct Sox9-Nfe2l1 interactions. Glia. 2013 Sep; 61(9):1518-32.
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  15. Ramos AD, Diaz A, Nellore A, Delgado RN, Park KY, Gonzales-Roybal G, Oldham MC, Song JS, Lim DA. Integration of genome-wide approaches identifies lncRNAs of adult neural stem cells and their progeny in vivo. Cell Stem Cell. 2013 May 2; 12(5):616-28.
    View on PubMed
  16. Han K, Gennarino VA, Lee Y, Pang K, Hashimoto-Torii K, Choufani S, Raju CS, Oldham MC, Weksberg R, Rakic P, Liu Z, Zoghbi HY. Human-specific regulation of MeCP2 levels in fetal brains by microRNA miR-483-5p. Genes Dev. 2013 Mar 1; 27(5):485-90.
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  17. Konopka G, Friedrich T, Davis-Turak J, Winden K, Oldham MC, Gao F, Chen L, Wang GZ, Luo R, Preuss TM, Geschwind DH. Human-specific transcriptional networks in the brain. Neuron. 2012 Aug 23; 75(4):601-17.
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  18. Oldham MC, Langfelder P, Horvath S. Network methods for describing sample relationships in genomic datasets: application to Huntington's disease. BMC Syst Biol. 2012; 6:63.
    View on PubMed
  19. Rosen EY, Wexler EM, Versano R, Coppola G, Gao F, Winden KD, Oldham MC, Martens LH, Zhou P, Farese RV, Geschwind DH. Functional genomic analyses identify pathways dysregulated by progranulin deficiency, implicating Wnt signaling. Neuron. 2011 Sep 22; 71(6):1030-42.
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  20. Iwamoto K, Bundo M, Ueda J, Oldham MC, Ukai W, Hashimoto E, Saito T, Geschwind DH, Kato T. Neurons show distinctive DNA methylation profile and higher interindividual variations compared with non-neurons. Genome Res. 2011 May; 21(5):688-96.
    View on PubMed

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