Paul Zumbo

30-70 48th Street, Apt 4H, Long Island City, NY 11103 Phone: (203) 213-4823 E-Mail: pzumbo@zoho.com

Experience
Senior Staff Associate, Physiology Department, Weill Cornell Medical College laboratory technicians and graduate students Staff Associate, Physiology Department, Weill Cornell Medical College laboratory technicians and graduate students Science Teacher, Saint Vincent Ferrer High School, New York taught a 5 week introduction to chemistry and physics summer course Biotechnology Research Associate, WM Keck Facility, Yale University managed all sequencing staff Logic Tutor, Philosophy Department, University of Massachusetts Dartmouth valued logics Writing Tutor, Reading and Writing Center, University of Massachusetts Dartmouth 09/04-05/07 teaching assistant for freshman English classes ! tutored individuals and small groups in critical thinking, writing, and reading ! facilitated training workshops for peer tutors 09/06-05/07 06/07-11/09 06/11-07/11 11/09-07/13 07/13-present developed next-generation sequence software ! optimized methods for sample preparation ! trained

developed next-generation sequencing software ! optimized methods for sample preparation ! trained

prepared sequencing libraries ! operated multiple illumina genome analysis systems ! trained and

tutored classical and non-classical logics including sentential, first-order, modal, relevance, and multi-

Education
B.S. Biology, magna cum laude University of Massachusetts Dartmouth, North Dartmouth, MA 02747 B.A. Philosophy, magna cum laude University of Massachusetts Dartmouth, North Dartmouth, MA 02747 09/03-05/07 09/03-05/07

Publications
[1] Zumbo P. and Mason CE. Methods for RNA Isolation, Characterization, and Sequencing. Genome Analysis: Current Procedures and Application. Ed. Maria Poptsova. England: Caister Academic Press, 2014. [2] Rapaport F, Khanin R, Liang Y, Pirun M, Krek A, Zumbo P, Mason CE, Socci ND, Betel D. Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data. Genome Biol. (2013) 14(9):R95 [3] Hatzi K, Jiang Y, Huang C, Garrett-Bakelman F, Gearhart MD, Giannopoulou EG, Zumbo P, Kirouac K,

Bhaskara S, Polo JM, Kormaksson M, MacKerell AD Jr, Xue F, Mason CE, Hiebert SW, Prive GG, Cerchietti L, Bardwell VJ, Elemento O, Melnick A. A hybrid mechanism of action for BCL6 in B cells defined by formation of functionally distinct complexes at enhancers and promoters. Cell. (2013) vol. 4 (4) pp. 578588 [4] Meyer JA, Wang J, Hogan LE, Yang JJ, Dandekar S, Patel JP, Tang Z, Zumbo P, Li S, Zavadil J, Levine RL, Cardozo T, Hunger SP, Raetz EA, Evans WE, Morrison DJ, Mason CE, Carroll WL. Relapse-specific mutations in NT5C2 in childhood acute lymphoblastic leukemia. Nat Genet. (2013) vol. 45 (3) pp. 290-294 [5] Li S, Garrett-Bakelman FE, Akalin A, Zumbo P, Levine R, To BL, Lewis ID, Brown AL, D'Andrea RJ, Melnick A, Mason CE. An optimized algorithm for detecting and annotating regional differential methylation. BMC Bioinformatics (2013) 14 Suppl 5:S10 [6] Pipes L, Li S, Bozinoski M, Palermo R, Peng X, Blood P, Kelly S, Weiss JM, Thierry-Mieg J, Thierry-Mieg D, Zumbo P, Chen R, Schroth GP, Mason CE, Katze MG. Comprehensive Analysis of mRNA Methylation Reveals Enrichment in 3' UTRs and near Stop Codons. Cell (2012) vol. 149 (7) pp. 1635-46 [7] Meyer KD, Saletore Y, Zumbo P, Elemento O, Mason CE, Jaffrey SR. The non-human primate reference transcriptome resource (NHPRTR) for comparative functional genomics. Nucleic Acid Res. (2013) 41(Database issue):D906-14 [8] Mason CE, Zumbo P, Sanders S, Folk M, Robinson D, Aydt R, Gollery M, Welsh M, Olson NE, Smith TM. Standardizing the next generation of bioinformatics software development with BioHDF (HDF5). Adv Exp Med Biol (2010) vol. 680 pp. 693-700 [9] Blekhman R, Marioni JC, Zumbo P, Stephens M, Gilad Y. Sex-specific and lineage-specific alternative splicing in primates. Genome Research (2010) vol. 20 (2) pp. 180-9 [10] Choi M, Scholl UI, Ji W, Liu T, Tikhonova IR, Zumbo P, Nayir A, Bakkalo!lu A, Ozen S, Sanjad S, NelsonWilliams C, Farhi A, Mane S, Lifton RP. Genetic diagnosis by whole exome capture and massively parallel DNA sequencing. Proc Natl Acad Sci USA (2009) vol. 106 (45) pp. 19096-101

White papers
[1] Zumbo, P. (2012) Alcohol Precipitation of Nucleic Acids. http://physiology.med.cornell.edu/faculty/mason/lab/zumbo/files/rna_phenol_chloroform.pdf [2] Zumbo, P. (2011) Phenol-chloroform Extraction of Nucleic Acids. http://physiology.med.cornell.edu/faculty/mason/lab/zumbo/files/rna_alcohol_precipitation.pdf

Workshops, Lectures, Talks

Microbiome Course, Rockefeller University and Math for American, New York, 2013 Worshop on the Metagenomic Sequencing Analysis using Galaxy Essentials of Bioinformatics Course, Weill Cornell Medical College, New York, 2013 Lecture on the Next Generation Sequencing and Analysis Next Generation Sequencing for Research and Clinical Genomics, Miptec, Switzerland, 2011 Talk on the Effects of Sample Preparation on Transcriptome Sequencing Zumbo, 2