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Aaron Diaz, PhD

TitleAssistant Professor
SchoolUCSF School of Medicine
DepartmentNeurological Surgery
Address1450 3rd Street
San Francisco CA 94158
Phone415-514-0408
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    New York UniversityBA1997Mathematics
    Cornell UniversityMS2003Computer Science
    Cornell UniversityPhD2003Applied Mathematics

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    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.


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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. Müller S, Diaz A. Single-Cell mRNA Sequencing in Cancer Research: Integrating the Genomic Fingerprint. Front Genet. 2017; 8:73. PMID: 28620412.
      View in: PubMed
    2. 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
    3. 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. PMID: 27153637; PMCID: PMC4937196 [Available on 07/15/17].
    4. Liu SJ, Nowakowski TJ, Pollen AA, Lui JH, Horlbeck MA, Attenello FJ, He D, Weissman JS, Kriegstein AR, Diaz A, 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.
    5. 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 Dec 11; 4. PMID: 26653140; PMCID: PMC4749390.
    6. 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.
    7. Diaz A, 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. PMID: 25428347; PMCID: PMC4330337.
    8. 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):449-461. PMID: 25036638; PMCID: PMC4130998.
    9. 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. PMID: 24709822; PMCID: PMC4009606.
    10. 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 02; 12(5):616-28. PMID: 23583100; PMCID: PMC3662805.
    11. 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. PMID: 23335939; PMCID: PMC3542818.
    12. Diaz A, Nellore A, Song J S. Genome Biology. CHANCE: comprehensive software for quality control and validation of ChIP-seq data. 2012; 13(10).
    13. Diaz A, Park K, Lim DA, Song JS. Normalization, bias correction, and peak calling for ChIP-seq. Stat Appl Genet Mol Biol. 2012 Mar 31; 11(3):Article 9. PMID: 22499706; PMCID: PMC3342857.
    14. 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. PMID: 22438827; PMCID: PMC3305387.
    15. Diaz A . Proceedings of the 4th WSEAS/IASME International Conference on Dynamical Systems and Control. Rezoning Techniques for ALE Computations. 2008.
    16. Diaz, A. Nonlinear Analysis: Hybrid Systems. An Error Analysis for Execution Traces of Hybrid Automata Using Jacobi's Equation. 2008; 2(1).
    17. 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.
    18. 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.
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