4 #+AUTHOR: Don Armstrong
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36 + *PhD* in Cell, Molecular and Developmental Biology
39 ** Genomics and Epigenomics
40 + Genomics and Epigenomics of complex human diseases including
41 PTSD, Systemic Lupus Erythematosus, and Alzheimer's Disease using
42 cross-sectional and longitudinal experimental designs
43 + Correcting for and experimental design to overcome multiple
44 testing, confounders, and batch effects using Bayesian and
45 frequentist methods approaches
46 + Reproducible, scalable analysis using workflows on cloud- and
47 cluster-based systems on terabyte-scale datasets
48 + Using evolutionary genomics to identify causal human variants
50 + Statistical modeling (regression, inference, Bayesian and
51 frequentist approaches in very large (> 1TB) datasets)
52 + Addressing confounders and batch effects
53 + Reproducible research
55 + Parallel and Cloud Computing
56 + Inter-process communication: MPI, OpenMP, Hadoop
57 + Filestorage: Gluster, CEFS, GPFS, Lustre
58 + Cloud based-infrastructure: Azure, AWS, Docker, cloud-init
59 + Debian GNU/Linux system administration
60 ** Mentoring and Leadership
61 + Mentored graduate students and Outreachy and Google Summer of Code
63 + Chairperson of the Debian Technical Committee
64 + Head developer behind https://bugs.debian.org
65 ** Software Development
66 + Languages: perl, R, C, C++, python, groovy, assembly, sh, make
67 + Collaborative Development: git, travis, continuous integration,
69 + Databases: Postgresql (PL/SQL), SQLite, Mysql
70 + Office Software: Gnumeric, Libreoffice, \LaTeX, Word, Excel,
73 + Strong written communication skills as evidenced by publication
75 + Strong verbal and presentation skills as evidenced by presentation
77 # ** Consortia Involvement
78 # + *H3A Bionet*: Generating workflows and cloud resources for H3 Africa
79 # + *Psychiatric Genomics Consortium*: Identification of epigenetic
80 # variants which are correlated with PTSD.
81 # + *SLEGEN*: System lupus erythematosus genetics consortium.
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95 ** Research Scientist at UIUC
96 + 2015--Present. University of Illinois at Urbana-Champaign. Epigenetic
97 modifications associated with PTSD, the genomic basis of the
98 development of parturition in mammals, and detecting adverse
99 pregnancy outcomes using urinary exosomes.
100 ** Postdoctoral Researcher at USC
101 + 2013--2015. Identifying genes and causal alleles associated with
102 Systemic Lupus Erythematosus using genome-wide association,
103 next-generation sequencing, computational and biochemical
105 ** Postdoctoral Researcher at UCR
106 + 2010--2012. Identifying genes which are associated with Systemic
107 Lupus Erythematosus using prior information and targeted trio-based
110 + 2004--Present. \emph{Debian Project}, Developer; Technical Committee
111 Member (2010--Present), Technical Committee Chair (2015--2016).
113 + *[[http://bugs.debian.org][Debbugs]]*: Bug tracking software for the Debian GNU/Linux
114 distribution. [[https://bugs.debian.org]]
115 + *[[http://git.donarmstrong.com/r/CairoHacks.git][CairoHacks]]*: Bookmarks and Raster images for large PDF plots in R.
116 + *[[http://rzlab.ucr.edu/function2gene/][Function2Gene]]*: Gene selection tool based on literature mining which
117 enables Bayesian approaches to significance testing.
118 + *[[http://rzlab.ucr.edu/scripts/wheel/wheel.cgi?sequence=ABCDEFGHIJLKMNOP&submit=Submit][Helical Wheel Projections]]*: Web-based tool to draw helical wheel
119 protein projections. [[http://rzlab.ucr.edu/scripts/wheel]]
120 * Publications and Presentations
121 + 20 peer-reviewed refereed publications cited over 1700 times:
123 + Publication record in GWAS, expression analysis of microarrays,
124 epigenetics, comparative evolution of mammals, and lipid membranes
126 + Multiple presentations on EWAS of PTSD, genetics of SLE, and Open
127 Source: https://dla2.us/pres
131 + 2017 R Consortium: *[[https://www.r-consortium.org/blog/2017/04/03/q1-2017-isc-grants][Adding Linux Binary Builders to R-Hub]]* Role:
133 + 2015 Blue Waters Allocation Grant: *Making ancestral trees using Bayesian
134 inference to identify disease-causing genetic variants* Role:
136 + *Tracking placenta and uterine funciton using urinary extracellular vesicles* (R21
137 RFA-HD-16-037) Role: Key Personnel
138 + *NIAMS* R01-AR045650-04 *Genetics of Childhood Onset SLE* to Chaim O. Jacob.
140 ** Scholarships and Fellowships
141 + 2001--2003: University of California, Riverside Doctoral Fellowship
142 + 1997--2001: Regents of the University of California Scholarship.