-Resume
-======
+[[!meta title="Curriculum Vitæ, Research Statement, and Teaching Statement"]]
-[Don Armstrong](http://www.donarmstrong.com/)
+# Education
+## UC Riverside
++ **PhD** in Cell, Molecular and Developmental Biology
++ **BS** in Biology
+
+# Skills
+## Genomics and Epigenomics
++ Genomics and Epigenomics of complex human diseases including
+ PTSD, Systemic Lupus Erythematosus, and Alzheimer's Disease using
+ cross-sectional and longitudinal experimental designs
++ Correcting for and experimental design to overcome multiple
+ testing, confounders, and batch effects using Bayesian and
+ frequentist methods approaches
++ Reproducible, scalable analysis using workflows on cloud- and
+ cluster-based systems on terabyte-scale datasets
++ Using evolutionary genomics to identify causal human variants
+
+## Statistics
++ Statistical modeling
++ Addressing confounders and batch effects
++ Reproducible research
+
+## Big Data
++ Parallel and Cloud Computing
++ Inter-process communication: MPI, OpenMP, Hadoop
++ Filestorage: Gluster, CEFS, GPFS, Lustre
++ Cloud based-infrastructure: Azure, AWS, Docker, cloud-init
++ Debian GNU/Linux system administration
+
+## Mentoring and Leadership
++ Mentored graduate students and Outreachy and Google Summer of Code
+ interns
++ Chairperson of the Debian Technical Committee
++ Head developer behind https://bugs.debian.org
+
+## Software Development
++ Languages: perl, R, C, C++, python, groovy, assembly, sh, make
++ Collaborative Development: git, travis, continuous integration,
+ automated testing
++ Databases: Postgresql (PL/SQL), SQLite, Mysql
+
+## Communication
++ Strong written communication skills as evidenced by publication
+ record
++ Strong verbal and presentation skills as evidenced by presentation
+ and teaching record
+
+# Experience
+## Research Scientist at UIUC
++ 2015--Present. University of Illinois at Urbana-Champaign. 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
++ 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
++ 2010--2012. Identifying genes which are associated with Systemic
+ Lupus Erythematosus using prior information and targeted trio-based
+ studies.
+
+## Debian Developer
++ 2004--Present. \emph{Debian Project}, Developer; Technical Committee
+ Member (2010--Present), Technical Committee Chair (2015--2016).
+
+# Authored Software
++ **[Debbugs](http://bugs.debian.org)**: Bug tracking software for the Debian GNU/Linux
+ distribution. [https://bugs.debian.org]
++ **[CairoHacks](http://git.donarmstrong.com/r/CairoHacks.git)**:
+ Bookmarks and Raster images for large PDF plots in R.
++ **[Function2Gene](http://rzlab.ucr.edu/function2gene/)**: Gene
+ selection tool based on literature mining which enables Bayesian
+ approaches to significance testing.
++ **[Helical Wheel Projections](http://rzlab.ucr.edu/scripts/wheel/wheel.cgi?sequence=ABCDEFGHIJLKMNOP&submit=Submit)**:
+ Web-based tool to draw helical wheel protein projections.
+ [http://rzlab.ucr.edu/scripts/wheel]
+
+# Publications and Presentations
++ 20 peer-reviewed refereed publications cited over 1700 times:
+ [https://dla2.us/pubs]
++ Publication record in GWAS, expression analysis of microarrays,
+ 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:
+ **[Adding Linux Binary Builders to R-Hub](https://www.r-consortium.org/blog/2017/04/03/q1-2017-isc-grants)**
+ 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.
+
+#Academic Information
+
+You can also read my [Curriculum Vitæ](curriculum_vitae)
+([pdf](dla-cv.pdf)), [Research Statement](research_statement)
+([pdf](research_statement.pdf)),
+and [Teaching Statement](teaching_statement)
+([pdf](teaching_statement.pdf)).
+
+For my contact information or additional references, please e-mail
<don@donarmstrong.com>
-<http://www.donarmstrong.com>
-[Phone contact information available via e-mail.]
-
-I am a practitioner of the art of solving problems as elegantly and
-practically as possible. I seek to enhance my abilities to solve
-problems in the digital realm by learning (and inventing where
-appropriate) new methods and techniques, and to help others achieve
-their goals by removing or smoothing over ponderous obstacles in their
-path. If you have difficult problems for which a digital approach
-seems appropriate, I'm the person to talk to to find a solution.
-
-Education
-----------
-* Doctor of Philosophy in Cell, Molecular and Developmental Biology from [UC Riverside](http://www.ucr.edu), 2008
-* Bachelor of Science in [Biology](http://bio.ucr.edu) from [UC Riverside](http://www.ucr.edu), 2001
-* Graduate, Scholar with Distinction from [Marina High School](http://www.hbuhsd.k12.ca.us/mhs/), 1997
-
-Experience
-----------
-* July 2002-July 2003: Researcher for Socratech, LLC
- * Affymetrix Gene Microarray Analysis using R, and Perl.
- * Custom designed cell, tissue and data tracking system in perl
- * Analysis of MA results using Gene Ontology
- * Literature minining using custom designed Perl scripts to search pubmed.
-* Jun. 2000-Jun 2001: Computer Resource Coordinator for [UC Riverside](http://www.ucr.edu)
- * Network administration/design of a 2000+ node network
- * developed web based registration system using bash, dhcp, perl, php and mysql
- * Developed network monitoring system
- ([rnm](http://rnm.sourceforge.net)) using php, mysql, perl, and
- snmp.
- * Supervised a staff of 13 RCCs<LI>Administration of 7+ Unix Servers (Apache,ISC DHCP, MySQL, mod_perl, slash)
- <LI>Computer Lab Administration (NT)
- <LI>Developed a printer recharge/tracking system using card readers, perl, mysql, and lpr-ng
- <LI>Developed a customer-tech Help Request System/Billing System using php, mysql, smtp, and perl
-
-Skills
-------
-
-
-Projects
---------
-[Current projects|projects]
-
-References
-----------
-Available Upon Request.
projects / don.git / blobdiff