Aaron Diaz, PhD

A B C D E F G H I J K L M N O P Q R S T U V W X Y Z
Aaron Diaz, PhD

Assistant Professor, Dept. of Neurological Surgery, Dept. of Epidemiology & Biostatistics, UCSF

Aaron.Diaz@ucsf.edu

Phone: (415) 514-0408
UCSF Box 0520
San Francisco, CA 94143-0520

UCSF Profiles | Lab Website

Research Summary

The Diaz Lab is interested in developing targeted therapeutics for the treatment of glioma. We apply molecular and computational approaches to elucidate targets and pathways mediating cancer progression. To date, some of the most effective cancer therapies have been those that hone in on molecular defects associated with specific driver genes. However, in highly diverse tumors, such as gliomas, clinical trials of promising targeted therapeutics often produce mixed results. This is at least partially due to intra-tumor regional heterogeneity in response to treatment. To address this pressing challenge, we combine high-throughput single-cell sequencing with state-of-the-art machine-learning algorithms, to produce quantitative models of tumor heterogeneity and micro-environment interaction. Moreover, brain tumor cells can exhibit phenotypes, and molecular signatures, of cell types found in the developing brain. We are also interested in the role of early-brain developmental programs in brain tumor growth.

Education

New York University, New York, NY, BA, 05/97, Mathematics
Cornell University, Ithaca, NY, MS, 05/03, Computer Science
Cornell University, Ithaca, NY, PhD, 05/03, Applied Mathematics
 


Professional Experience

  • 1998-1999
    Sandia National Laboratories, Dept. of Applied Mathematics and Applications, Intern
  • 2002-2003
    Cornell University, Dept. of Computer Science, Instructor
  • 2003-2010
    Santa Clara University, Dept. of Mathematics & Computer Science, Assistant Professor
  • 2010-2014
    UCSF, Institute for Human Genetics, postdoc employee
  • 2014-present
    UCSF, Dept. of Neurological Surgery, Dept. of Epidemiology & Biostatistics, Assistant Professor

Honors & Awards

  • 1993New York University, Tuition Scholarship.
  • 1997
    Institute for Advanced Study, Institute for Geometry and Topology Award.
  • 1997
    Cornell University, Sage Fellowship and Engineering Scholarship.
  • 2008
    Santa Clara University, Dean's Grant: “Implementing Eigenvalue Perturbation Techniques in Parallel.”
  • 2010
    BCATS Plenary Talk Award

Selected Publications

  1. 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.
    View on PubMed
  2. 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 Jul 15; 32(14):2219-20.
    View on PubMed
  3. 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; 17(1):67.
    View on PubMed
  4. Suzawa M, Miranda DA, Ramos KA, Ang KK, Faivre EJ, Wilson CG, Caboni L, Arkin MR, Kim YS, Fletterick RJ, Diaz A, Schneekloth JS, Ingraham HA. A gene-expression screen identifies a non-toxic sumoylation inhibitor that mimics SUMO-less human LRH-1 in liver. Elife. 2015; 4.
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  5. 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
  6. Diaz AA, Qin H, Ramalho-Santos M, Song JS. HiTSelect: a comprehensive tool for high-complexity-pooled screen analysis. Nucleic Acids Res. 2015 Feb 18; 43(3):e16.
    View on PubMed
  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):449-61.
    View on PubMed
  8. Nagarajan RP, Zhang B, Bell RJ, Johnson BE, Olshen AB, Sundaram V, Li D, Graham AE, Diaz A, Fouse SD, Smirnov I, Song J, Paris PL, Wang T, Costello JF. Recurrent epimutations activate gene body promoters in primary glioblastoma. Genome Res. 2014 May; 24(5):761-74.
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  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.
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  10. Nellore A, Bobkov K, Howe E, Pankov A, Diaz A, Song JS. NSeq: a multithreaded Java application for finding positioned nucleosomes from sequencing data. Front Genet. 2012; 3:320.
    View on PubMed
  11. Diaz A, Nellore A, Song J S. Genome Biology. CHANCE: comprehensive software for quality control and validation of ChIP-seq data. 2012; 13(10).
    View on PubMed
  12. Diaz A, Park K, Lim DA, Song JS. Normalization, bias correction, and peak calling for ChIP-seq. Stat Appl Genet Mol Biol. 2012; 11(3):Article 9.
    View on PubMed
  13. Hunkapiller J, Shen Y, Diaz A, Cagney G, McCleary D, Ramalho-Santos M, Krogan N, Ren B, Song JS, Reiter JF. Polycomb-like 3 promotes polycomb repressive complex 2 binding to CpG islands and embryonic stem cell self-renewal. PLoS Genet. 2012; 8(3):e1002576.
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  14. Diaz A. Proceedings of the 4th WSEAS/IASME International Conference on Dynamical Systems and Control. Rezoning Techniques for ALE Computations. 2008.
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  15. Diaz, A. Nonlinear Analysis: Hybrid Systems. An Error Analysis for Execution Traces of Hybrid Automata Using Jacobi's Equation. 2008; 2(1).
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  16. Maire P-H, De Buhan M, Diaz A, Dobrzynski C, Kluth G, Lagoutiere, F. European Series in Applied and Industrial Mathematics: Proceedings Societe de Mathematiques Appliquees et Industrielles. A Cell-Centered Arbitrary Lagrangian Eulerian (ALE) Method for Multimaterial Compressible Flows. 2008; 13.
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  17. Diaz A. International Journal of Hybrid Systems. Extraction of Finite State Controllers, AD and DA maps, and Associated Small Topologies for Measure Valued Control Laws. 2003.
    View on PubMed

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