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    Erin Simonds, PhD

    TitleAdjunct Instructor
    SchoolUCSF School of Medicine
    DepartmentNeurology
    Address1450 3rd Street
    San Francisco CA 94158
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      Collapse Biography 
      Collapse Awards and Honors
      Damon Runyon Cancer Research Foundation2014 - 2018Damon Runyon Postdoctoral Fellowship
      Alex's Lemonade Stand Foundation2013 - 2015Young Investigator Award
      Stanford University Dept. of Microbiology & Immunology2012 - 2012Sidney Raffel Award for Outstanding PhD Dissertation

      Collapse Overview 
      Collapse Overview
      Coming from an immunology background, I have a longstanding interest in cellular phenotypic heterogeneity and the relationship between different cell fates and their underlying signaling biology. Now, as a cancer biologist, I am applying single-cell analysis techniques to understand how phenotypic heterogeneity contributes to cancer growth and resistance to therapy.

      As a PhD student, I helped develop single-cell assays to study signaling in the healthy immune system (Science 2011), and in childhood leukemias (Cell 2015). As a postdoc, I am applying these same approaches to investigate phenotypic plasticity and immune infiltration in glioblastoma, the most common and lethal brain tumor.

      Many of my experiments are enabled by a next-generation flow cytometry platform (CyTOF mass cytometry), which can measure up to 42 protein expression and intracellular signaling markers at the single-cell level in millions of cancer cells. This platform provides detailed biochemical profiles of rare and complex samples, uncovering subpopulations that would have been overlooked by classical bulk protein and genetic assays.


      Collapse ORNG Applications 
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      Collapse Featured Publications

      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. Transforming Big Data into Cancer-Relevant Insight: An Initial, Multi-Tier Approach to Assess Reproducibility and Relevance. Mol Cancer Res. 2016 Aug; 14(8):675-82. PMID: 27401613; PMCID: PMC4987219 [Available on 08/01/17].
      2. Jones C, Karajannis MA, Jones DT, Kieran MW, Monje M, Baker SJ, Becher OJ, Cho YJ, Gupta N, Hawkins C, Hargrave D, Haas-Kogan DA, Jabado N, Li XN, Mueller S, Nicolaides T, Packer RJ, Persson AI, Phillips JJ, Simonds EF, Stafford JM, Tang Y, Pfister SM, Weiss WA, et al. Pediatric high-grade glioma: biologically and clinically in need of new thinking. Neuro Oncol. 2016 Jun 9. PMID: 27282398.
        View in: PubMed
      3. Gustafson WC, Meyerowitz JG, Nekritz EA, Chen J, Benes C, Charron E, Simonds EF, Seeger R, Matthay KK, Hertz NT, Eilers M, Shokat KM, Weiss WA. Drugging MYCN through an allosteric transition in Aurora kinase A. Cancer Cell. 2014 Sep 8; 26(3):414-27. PMID: 25175806; PMCID: PMC4160413.
      4. Bendall SC, Davis KL, Amir el-AD, Tadmor MD, Simonds EF, Chen TJ, Shenfeld DK, Nolan GP, Pe'er D. Single-cell trajectory detection uncovers progression and regulatory coordination in human B cell development. Cell. 2014 Apr 24; 157(3):714-25. PMID: 24766814; PMCID: PMC4045247.
      5. Amir el-AD, Davis KL, Tadmor MD, Simonds EF, Levine JH, Bendall SC, Shenfeld DK, Krishnaswamy S, Nolan GP, Pe'er D. viSNE enables visualization of high dimensional single-cell data and reveals phenotypic heterogeneity of leukemia. Nat Biotechnol. 2013 Jun; 31(6):545-52. PMID: 23685480; PMCID: PMC4076922.
      6. Finck R, Simonds EF, Jager A, Krishnaswamy S, Sachs K, Fantl W, Pe'er D, Nolan GP, Bendall SC. Normalization of mass cytometry data with bead standards. Cytometry A. 2013 May; 83(5):483-94. PMID: 23512433; PMCID: PMC3688049.
      7. Bodenmiller B, Zunder ER, Finck R, Chen TJ, Savig ES, Bruggner RV, Simonds EF, Bendall SC, Sachs K, Krutzik PO, Nolan GP. Multiplexed mass cytometry profiling of cellular states perturbed by small-molecule regulators. Nat Biotechnol. 2012 Sep; 30(9):858-67. PMID: 22902532; PMCID: PMC3627543.
      8. Linderman MD, Bjornson Z, Simonds EF, Qiu P, Bruggner RV, Sheode K, Meng TH, Plevritis SK, Nolan GP. CytoSPADE: high-performance analysis and visualization of high-dimensional cytometry data. Bioinformatics. 2012 Sep 15; 28(18):2400-1. PMID: 22782546; PMCID: PMC3436846.
      9. Fienberg HG, Simonds EF, Fantl WJ, Nolan GP, Bodenmiller B. A platinum-based covalent viability reagent for single-cell mass cytometry. Cytometry A. 2012 Jun; 81(6):467-75. PMID: 22577098; PMCID: PMC3808967.
      10. Qiu P, Simonds EF, Bendall SC, Gibbs KD, Bruggner RV, Linderman MD, Sachs K, Nolan GP, Plevritis SK. Extracting a cellular hierarchy from high-dimensional cytometry data with SPADE. Nat Biotechnol. 2011 Oct; 29(10):886-91. PMID: 21964415; PMCID: PMC3196363.
      11. Bendall SC, Simonds EF, Qiu P, Amir el-AD, Krutzik PO, Finck R, Bruggner RV, Melamed R, Trejo A, Ornatsky OI, Balderas RS, Plevritis SK, Sachs K, Pe'er D, Tanner SD, Nolan GP. Single-cell mass cytometry of differential immune and drug responses across a human hematopoietic continuum. Science. 2011 May 6; 332(6030):687-96. PMID: 21551058; PMCID: PMC3273988.
      12. O'Gorman WE, Sampath P, Simonds EF, Sikorski R, O'Malley M, Krutzik PO, Chen H, Panchanathan V, Chaudhri G, Karupiah G, Lewis DB, Thorne SH, Nolan GP. Alternate mechanisms of initial pattern recognition drive differential immune responses to related poxviruses. Cell Host Microbe. 2010 Aug 19; 8(2):174-85. PMID: 20709294; PMCID: PMC2940993.
      13. Oh ST, Simonds EF, Jones C, Hale MB, Goltsev Y, Gibbs KD, Merker JD, Zehnder JL, Nolan GP, Gotlib J. Novel mutations in the inhibitory adaptor protein LNK drive JAK-STAT signaling in patients with myeloproliferative neoplasms. Blood. 2010 Aug 12; 116(6):988-92. PMID: 20404132; PMCID: PMC2924231.
      14. Simonds EF, Davis KL, Lacayo NJ. Speeding the flow toward personalized therapy in childhood acute leukemia. Pediatr Blood Cancer. 2009 Oct; 53(4):525-6. PMID: 19642213.
        View in: PubMed
      15. O'Gorman WE, Dooms H, Thorne SH, Kuswanto WF, Simonds EF, Krutzik PO, Nolan GP, Abbas AK. The initial phase of an immune response functions to activate regulatory T cells. J Immunol. 2009 Jul 1; 183(1):332-9. PMID: 19542444; PMCID: PMC2753472.
      16. Kotecha N, Flores NJ, Irish JM, Simonds EF, Sakai DS, Archambeault S, Diaz-Flores E, Coram M, Shannon KM, Nolan GP, Loh ML. Single-cell profiling identifies aberrant STAT5 activation in myeloid malignancies with specific clinical and biologic correlates. Cancer Cell. 2008 Oct 7; 14(4):335-43. PMID: 18835035; PMCID: PMC2647559.
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