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+#+OPTIONS: ^:nil
+#+OPTIONS: toc:nil
+#+TITLE: Resume
+#+AUTHOR: Don L. Armstrong
+#+LATEX_CMD: xelatex
+#+LATEX_CLASS: dlaresume
+# #+LATEX_CLASS_OPTIONS: [10pt,breaklinks]
+
+* Experience
+** Research Scientist at UIUC \hfill 2015--2017
++ Epigenetic modifications associated with PTSD, the genomic basis of
+  the development of parturition in mammals, and detecting adverse
+  pregnancy outcomes using urinary exosomes.
+** Postdoctoral Researcher at USC \hfill 2013--2015
++ Identifying genes and causal alleles associated with Systemic Lupus
+  Erythematosus using genome-wide association, next-generation
+  sequencing, computational and biochemical approaches.
+** Postdoctoral Researcher at UCR \hfill 2010--2012
++ Identifying genes which are associated with Systemic Lupus
+  Erythematosus using prior information and targeted trio-based
+  studies.
+** Debian Developer \hfill 2004--Present
++ \emph{Debian Project}, Developer; Technical Committee Member
+  (2010--2016), Technical Committee Chair (2015--2016).
+
+* Education
+** Doctor of Philosophy (PhD) \hfill UC Riverside
+ + Cell, Molecular and Developmental Biology.
+** Batchelor of Science (BS) in Biology \hfill UC Riverside
+
+* Skills
+** Genomics and Epigenomics
++ *NGS* and array-based Genomics and Epigenomics of complex human
+  diseases using *RNA-seq*, targeted DNA sequencing, *RRBS*, Illumina
+  bead arrays, and Affymetrix microarrays from sample collection to
+  publication.
++ Reproducible, scalable bioinformatics analysis using make,
+  *nextflow*, and *cwl* based workflows on cloud- and cluster-based
+  systems on terabyte-scale datasets
++ Alignment, annotation, and variant calling using existing and custom
+  software, including *GATK*, *bwa*, *STAR*, and *kallisto*.
++ Correcting for and experimental design to overcome multiple
+  testing, confounders, and batch effects using Bayesian and
+  frequentist methods approaches
+# + Using evolutionary genomics to identify causal human variants
+** Statistics
++ Statistical modeling (regression, inference, prediction, and
+  learning in very large (> 1TB) datasets)
++ Addressing confounders and batch effects
+# + Reproducible research
+** Big Data
++ Parallel and Cloud Computing (slurm, torque, AWS, OpenStack, Azure)
++ Inter-process communication: MPI, OpenMP
++ Filestorage: Gluster, CEFS, GPFS, Lustre
++ Linux system administration
+** Mentoring and Leadership
++ Mentored graduate students and Outreachy and Google Summer of Code
+  interns
++ Former chair of Debian's Technical Committee
++ Head developer behind https://bugs.debian.org
+** Software Development
++ Languages: perl, R, C, C++, python, groovy, sh, make
++ Collaborative Development: git, travis, continuous integration,
+  automated testing
++ Web, Mobile: Shiny, jQuery, JavaScript
++ Databases: Postgresql (PL/SQL), SQLite, Mysql, NoSQL
++ Office Software: Gnumeric, Libreoffice, \LaTeX, Word, Excel,
+  Powerpoint
+** Communication
++ Strong written communication skills as evidenced by publication
+  record
++ Strong verbal and presentation skills as evidenced by presentation
+  and teaching record
+# ** Consortia Involvement
+# + *H3A Bionet*: Generating workflows and cloud resources for H3 Africa
+# + *Psychiatric Genomics Consortium*: Identification of epigenetic
+#   variants which are correlated with PTSD.
+# + *SLEGEN*: System lupus erythematosus genetics consortium.
+* Authored Software
++ *[[http://bugs.debian.org][Debbugs]]*: Bug tracking software for the Debian GNU/Linux
+   distribution. [[https://bugs.debian.org]]
++ *[[http://git.donarmstrong.com/r/CairoHacks.git][CairoHacks]]*: Bookmarks and Raster images for large PDF plots in R.
++ *[[http://rzlab.ucr.edu/function2gene/][Function2Gene]]*: Gene selection tool based on literature mining which
+   enables Bayesian approaches to significance testing.
++ *[[http://rzlab.ucr.edu/scripts/wheel/wheel.cgi?sequence=ABCDEFGHIJLKMNOP&submit=Submit][Helical Wheel Projections]]*: Web-based tool to draw helical wheel
+   protein projections. [[http://rzlab.ucr.edu/scripts/wheel]]
+* Publications and Presentations
++ 24 peer-reviewed publications cited over 1800 times:
+  https://dla2.us/pubs
++ Publication record in GWAS, expression analysis of microarrays, SLE,
+  GBM, epigenetics, comparative evolution of mammals, and lipid
+  membranes
++ H index of 11
++ Multiple presentations on EWAS of PTSD, genetics of SLE, and Open
+  Source: https://dla2.us/pres
+
+* Funding and Awards
+** Grants
++ 2017 R Consortium: *[[https://www.r-consortium.org/blog/2017/04/03/q1-2017-isc-grants][Adding Linux Binary Builders to R-Hub]]* Role:
+  Co-PI
++ 2015 Blue Waters Allocation Grant: *Making ancestral trees using Bayesian
+  inference to identify disease-causing genetic variants* Role:
+  Primary Investigator
++ *Tracking placenta and uterine funciton using urinary extracellular vesicles* (R21
+  RFA-HD-16-037) Role: Key Personnel
++ *NIAMS* R01-AR045650-04 *Genetics of Childhood Onset SLE* to Chaim O. Jacob.
+  Role: Key Personnel
+** Scholarships and Fellowships
++ 2001--2003: University of California, Riverside Doctoral Fellowship
++ 1997--2001: Regents of the University of California Scholarship.
+
+
+