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    Michael Oldham, PhD

    Address1450 3rd Street
    San Francisco CA 94158
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      I am a UCSF Sandler Fellow and Principal Investigator in the Neurology department and The Eli and Edythe Broad Center of Regeneration Medicine and Stem Cell Research at UCSF. The overarching research objectives in my laboratory are to elucidate the relationships between cellular heterogeneity, functional diversity, and disease susceptibility in discrete human brain regions; to understand how cellular heterogeneity arises during human brain development; and to establish novel quantitative frameworks for studying the molecular and cellular evolution of the human brain and its pathologies. The general strategy is to adopt a multivariate, quantitative perspective on the molecular and cellular organization of the human brain during development, health, and disease through the lens of gene coexpression.

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      Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.
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      1. 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 in: PubMed
      2. 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.
        View in: PubMed
      3. 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 in: PubMed PMC4231536
      4. 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 in: PubMed
      5. 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 in: PubMed PMC4032491
      6. 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 in: PubMed
      7. 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 3; 124(3):981-99.
        View in: PubMed PMC3938263
      8. 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.
        View in: PubMed PMC3909648
      9. 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 in: PubMed PMC3662805
      10. 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.
        View in: PubMed PMC3605462
      11. 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.
        View in: PubMed PMC3645834
      12. 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 in: PubMed PMC3441531
      13. 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.
        View in: PubMed PMC3633414
      14. 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 in: PubMed PMC3083085
      15. Langfelder P, Luo R, Oldham MC, Horvath S. Is my network module preserved and reproducible? PLoS Comput Biol. 2011; 7(1):e1001057.
        View in: PubMed PMC3024255
      16. Cai C, Langfelder P, Fuller TF, Oldham MC, Luo R, van den Berg LH, Ophoff RA, Horvath S. Is human blood a good surrogate for brain tissue in transcriptional studies? BMC Genomics. 2010; 11:589.
        View in: PubMed PMC3091510
      17. Mumford JA, Horvath S, Oldham MC, Langfelder P, Geschwind DH, Poldrack RA. Detecting network modules in fMRI time series: a weighted network analysis approach. Neuroimage. 2010 Oct 1; 52(4):1465-76.
        View in: PubMed PMC3632300
      18. Winden KD, Oldham MC, Mirnics K, Ebert PJ, Swan CH, Levitt P, Rubenstein JL, Horvath S, Geschwind DH. The organization of the transcriptional network in specific neuronal classes. Mol Syst Biol. 2009; 5:291.
        View in: PubMed PMC2724976
      19. Oldham MC, Konopka G, Iwamoto K, Langfelder P, Kato T, Horvath S, Geschwind DH. Functional organization of the transcriptome in human brain. Nat Neurosci. 2008 Nov; 11(11):1271-82.
        View in: PubMed PMC2756411
      20. Miller JA, Oldham MC, Geschwind DH. A systems level analysis of transcriptional changes in Alzheimer's disease and normal aging. J Neurosci. 2008 Feb 6; 28(6):1410-20.
        View in: PubMed PMC2902235
      21. Abrahams BS, Tentler D, Perederiy JV, Oldham MC, Coppola G, Geschwind DH. Genome-wide analyses of human perisylvian cerebral cortical patterning. Proc Natl Acad Sci U S A. 2007 Nov 6; 104(45):17849-54.
        View in: PubMed PMC2077018
      22. Spiteri E, Konopka G, Coppola G, Bomar J, Oldham M, Ou J, Vernes SC, Fisher SE, Ren B, Geschwind DH. Identification of the transcriptional targets of FOXP2, a gene linked to speech and language, in developing human brain. Am J Hum Genet. 2007 Dec; 81(6):1144-57.
        View in: PubMed PMC2276350
      23. Oldham MC, Horvath S, Geschwind DH. Conservation and evolution of gene coexpression networks in human and chimpanzee brains. Proc Natl Acad Sci U S A. 2006 Nov 21; 103(47):17973-8.
        View in: PubMed PMC1693857
      24. Oldham MC, Geschwind DH. Comparative genomics: grasping human transcriptome evolution: what does it all mean? Heredity (Edinb). 2006 May; 96(5):339-40.
        View in: PubMed
      25. Oldham MC, Geschwind DH. Deconstructing language by comparative gene expression: from neurobiology to microarray. Genes Brain Behav. 2006; 5 Suppl 1:54-63.
        View in: PubMed
      26. Oldham MC, Geschwind DH. Evolutionary genetics: the human brain -- adaptation at many levels. Eur J Hum Genet. 2005 May; 13(5):520-2.
        View in: PubMed
      27. Preuss TM, Cáceres M, Oldham MC, Geschwind DH. Human brain evolution: insights from microarrays. Nat Rev Genet. 2004 Nov; 5(11):850-60.
        View in: PubMed
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