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Tomasz Nowakowski, PhD

TitleAssistant Professor
InstitutionUniversity of California San Francisco
DepartmentAnatomy
Address1550 Fourth Street
Phone415-476-0878
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    Collapse Biography 
    Collapse Education and Training
    University of Edinburgh , Edinburgh, UKBSc07/2007Biological Sciences
    University of Edinburgh , Edinburgh, UKPhD06/2012Biomedical Sciences
    University of California, San Francisco, San Francisco, CApostdoc06/2017Developmental Neurobiology
    Collapse Awards and Honors
    Chan-Zuckerberg Biohub2018Investigator
    Allen Institute for Brain Science2018  - 2021Next Generation Leaders Council, Member
    Eppendorf & Science Prize for Neurobiology2018Finalist
    Cajal Club2017Krieg Cortical Explorer
    Simons Foundation for Autism Research2018  - 2021Simons Foundation Bridge to Independence Award
    Brain & Behavior Research Foundation2019  - 2021NARSAD Young Investigator Award
    Broad Center Regenerative Med & Stem Cell Research 2017  - 2018Broad Innovation Award
    Wellcome Trust2007  - 2011Wellcome Trust 4-Year Studentship

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    Collapse In The News
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    Collapse Featured Videos

    Collapse Bibliographic 
    Collapse Publications
    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. Nowakowski TJ, Rani N, Golkaram M, Zhou HR, Alvarado B, Huch K, West JA, Leyrat A, Pollen AA, Kriegstein AR, Petzold LR, Kosik KS. Regulation of cell-type-specific transcriptomes by microRNA networks during human brain development. Nat Neurosci. 2018 Nov 19. PMID: 30455455.
      View in: PubMed
    2. Bhaduri A, Nowakowski TJ. Single-cell sequencing paints diverse pictures of the brain. Nature. 2018 Nov; 563(7729):38-39. PMID: 30382219.
      View in: PubMed
    3. Nowakowski TJ. Building blocks of the human brain. Science. 2018 Oct 12; 362(6411):169. PMID: 30309940.
      View in: PubMed
    4. Bhaduri A, Nowakowski TJ, Pollen AA, Kriegstein AR. Identification of cell types in a mouse brain single-cell atlas using low sampling coverage. BMC Biol. 2018 Oct 11; 16(1):113. PMID: 30309354.
      View in: PubMed
    5. Dougherty ML, Underwood JG, Nelson BJ, Tseng E, Munson KM, Penn O, Nowakowski TJ, Pollen AA, Eichler EE. Transcriptional fates of human-specific segmental duplications in brain. Genome Res. 2018 Sep 18. PMID: 30228200.
      View in: PubMed
    6. Willsey AJ, Morris MT, Wang S, Willsey HR, Sun N, Teerikorpi N, Baum TB, Cagney G, Bender KJ, Desai TA, Srivastava D, Davis GW, Doudna J, Chang E, Sohal V, Lowenstein DH, Li H, Agard D, Keiser MJ, Shoichet B, von Zastrow M, Mucke L, Finkbeiner S, Gan L, Sestan N, Ward ME, Huttenhain R, Nowakowski TJ, Bellen HJ, Frank LM, Khokha MK, Lifton RP, Kampmann M, Ideker T, State MW, Krogan NJ. The Psychiatric Cell Map Initiative: A Convergent Systems Biological Approach to Illuminating Key Molecular Pathways in Neuropsychiatric Disorders. Cell. 2018 Jul 26; 174(3):505-520. PMID: 30053424.
      View in: PubMed
    7. Fiddes IT, Lodewijk GA, Mooring M, Bosworth CM, Ewing AD, Mantalas GL, Novak AM, van den Bout A, Bishara A, Rosenkrantz JL, Lorig-Roach R, Field AR, Haeussler M, Russo L, Bhaduri A, Nowakowski TJ, Pollen AA, Dougherty ML, Nuttle X, Addor MC, Zwolinski S, Katzman S, Kriegstein A, Eichler EE, Salama SR, Jacobs FMJ, Haussler D. Human-Specific NOTCH2NL Genes Affect Notch Signaling and Cortical Neurogenesis. Cell. 2018 May 31; 173(6):1356-1369.e22. PMID: 29856954.
      View in: PubMed
    8. Werling DM, Brand H, An JY, Stone MR, Zhu L, Glessner JT, Collins RL, Dong S, Layer RM, Markenscoff-Papadimitriou E, Farrell A, Schwartz GB, Wang HZ, Currall BB, Zhao X, Dea J, Duhn C, Erdman CA, Gilson MC, Yadav R, Handsaker RE, Kashin S, Klei L, Mandell JD, Nowakowski TJ, Liu Y, Pochareddy S, Smith L, Walker MF, Waterman MJ, He X, Kriegstein AR, Rubenstein JL, Sestan N, McCarroll SA, Neale BM, Coon H, Willsey AJ, Buxbaum JD, Daly MJ, State MW, Quinlan AR, Marth GT, Roeder K, Devlin B, Talkowski ME, Sanders SJ. An analytical framework for whole-genome sequence association studies and its implications for autism spectrum disorder. Nat Genet. 2018 Apr 26. PMID: 29700473.
      View in: PubMed
    9. Kosik KS, Nowakowski T. Evolution of New miRNAs and Cerebro-Cortical Development. Annu Rev Neurosci. 2018 Apr 04. PMID: 29618285.
      View in: PubMed
    10. Nowakowski TJ, Bhaduri A, Pollen AA, Alvarado B, Mostajo-Radji MA, Di Lullo E, Haeussler M, Sandoval-Espinosa C, Liu SJ, Velmeshev D, Ounadjela JR, Shuga J, Wang X, Lim DA, West JA, Leyrat AA, Kent WJ, Kriegstein AR. Spatiotemporal gene expression trajectories reveal developmental hierarchies of the human cortex. Science. 2017 12 08; 358(6368):1318-1323. PMID: 29217575.
      View in: PubMed
    11. Bershteyn M, Nowakowski TJ, Pollen AA, Di Lullo E, Nene A, Wynshaw-Boris A, Kriegstein AR. Human iPSC-Derived Cerebral Organoids Model Cellular Features of Lissencephaly and Reveal Prolonged Mitosis of Outer Radial Glia. Cell Stem Cell. 2017 04 06; 20(4):435-449.e4. PMID: 28111201.
      View in: PubMed
    12. Gambardella G, Carissimo A, Chen A, Cutillo L, Nowakowski TJ, di Bernardo D, Blelloch R. The impact of microRNAs on transcriptional heterogeneity and gene co-expression across single embryonic stem cells. Nat Commun. 2017 Jan 19; 8:14126. PMID: 28102192.
      View in: PubMed
    13. Retallack H, Di Lullo E, Arias C, Knopp KA, Laurie MT, Sandoval-Espinosa C, Mancia Leon WR, Krencik R, Ullian EM, Spatazza J, Pollen AA, Mandel-Brehm C, Nowakowski TJ, Kriegstein AR, DeRisi JL. Zika virus cell tropism in the developing human brain and inhibition by azithromycin. Proc Natl Acad Sci U S A. 2016 12 13; 113(50):14408-14413. PMID: 27911847.
      View in: PubMed
    14. Müller S, Liu SJ, Di Lullo E, Malatesta M, Pollen AA, Nowakowski TJ, Kohanbash G, Aghi M, Kriegstein AR, Lim DA, Diaz A. Single-cell sequencing maps gene expression to mutational phylogenies in PDGF- and EGF-driven gliomas. Mol Syst Biol. 2016 Nov 25; 12(11):889. PMID: 27888226.
      View in: PubMed
    15. Nowakowski TJ, Pollen AA, Sandoval-Espinosa C, Kriegstein AR. Transformation of the Radial Glia Scaffold Demarcates Two Stages of Human Cerebral Cortex Development. Neuron. 2016 Sep 21; 91(6):1219-1227. PMID: 27657449.
      View in: PubMed
    16. Rani N, Nowakowski TJ, Zhou H, Godshalk SE, Lisi V, Kriegstein AR, Kosik KS. A Primate lncRNA Mediates Notch Signaling during Neuronal Development by Sequestering miRNA. Neuron. 2016 06 15; 90(6):1174-1188. PMID: 27263970; PMCID: PMC4911262 [Available on 06/15/17].
    17. Diaz A, Liu SJ, Sandoval C, Pollen A, Nowakowski TJ, Lim DA, Kriegstein A. SCell: integrated analysis of single-cell RNA-seq data. Bioinformatics. 2016 07 15; 32(14):2219-20. PMID: 27153637; PMCID: PMC4937196 [Available on 07/15/17].
    18. Liu SJ, Nowakowski TJ, Pollen AA, Lui JH, Horlbeck MA, Attenello FJ, He D, Weissman JS, Kriegstein AR, Diaz AA, Lim DA. Single-cell analysis of long non-coding RNAs in the developing human neocortex. Genome Biol. 2016 Apr 14; 17:67. PMID: 27081004; PMCID: PMC4831157.
    19. Nowakowski TJ, Pollen AA, Di Lullo E, Sandoval-Espinosa C, Bershteyn M, Kriegstein AR. Expression Analysis Highlights AXL as a Candidate Zika Virus Entry Receptor in Neural Stem Cells. Cell Stem Cell. 2016 05 05; 18(5):591-6. PMID: 27038591.
      View in: PubMed
    20. 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. PMID: 26406371; PMCID: PMC4583716.
    21. Ramos AD, Andersen RE, Liu SJ, Nowakowski TJ, Hong SJ, Gertz C, Salinas RD, Zarabi H, Kriegstein AR, Lim DA. The long noncoding RNA Pnky regulates neuronal differentiation of embryonic and postnatal neural stem cells. Cell Stem Cell. 2015 Apr 02; 16(4):439-447. PMID: 25800779; PMCID: PMC4388801.
    22. 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. PMID: 25391964; PMCID: PMC4231536.
    23. Pollen AA, Nowakowski TJ, Shuga J, Wang X, Leyrat AA, Lui JH, Li N, Szpankowski L, Fowler B, Chen P, Ramalingam N, Sun G, Thu M, Norris M, Lebofsky R, Toppani D, Kemp DW, Wong M, Clerkson B, Jones BN, Wu S, Knutsson L, Alvarado B, Wang J, Weaver LS, May AP, Jones RC, Unger MA, Kriegstein AR, West JA. Low-coverage single-cell mRNA sequencing reveals cellular heterogeneity and activated signaling pathways in developing cerebral cortex. Nat Biotechnol. 2014 Oct; 32(10):1053-8. PMID: 25086649; PMCID: PMC4191988.
    24. Nowakowski TJ, Mysiak KS, O'Leary T, Fotaki V, Pratt T, Price DJ. Loss of functional Dicer in mouse radial glia cell-autonomously prolongs cortical neurogenesis. Dev Biol. 2013 Oct 15; 382(2):530-7. PMID: 24012747; PMCID: PMC3793872.
    25. Nowakowski TJ, Fotaki V, Pollock A, Sun T, Pratt T, Price DJ. MicroRNA-92b regulates the development of intermediate cortical progenitors in embryonic mouse brain. Proc Natl Acad Sci U S A. 2013 Apr 23; 110(17):7056-61. PMID: 23569256; PMCID: PMC3637761.
    26. Pratt T, Davey JW, Nowakowski TJ, Raasumaa C, Rawlik K, McBride D, Clinton M, Mason JO, Price DJ. The expression and activity of ß-catenin in the thalamus and its projections to the cerebral cortex in the mouse embryo. BMC Neurosci. 2012 Feb 23; 13:20. PMID: 22360971; PMCID: PMC3347985.
    27. Nowakowski TJ, Mysiak KS, Pratt T, Price DJ. Functional dicer is necessary for appropriate specification of radial glia during early development of mouse telencephalon. PLoS One. 2011; 6(8):e23013. PMID: 21826226.
      View in: PubMed
    28. Quinn JC, Molinek M, Nowakowski TJ, Mason JO, Price DJ. Novel lines of Pax6-/- embryonic stem cells exhibit reduced neurogenic capacity without loss of viability. BMC Neurosci. 2010 Feb 24; 11:26. PMID: 20178645; PMCID: PMC2837049.
    29. Lafong A, Hossack WJ, Arlt J, Nowakowski TJ, Read ND. Time-Multiplexed Laguerre-Gaussian holographic optical tweezers for biological applications. Opt Express. 2006 Apr 03; 14(7):3065-72. PMID: 19516447.
      View in: PubMed
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