From: Don Armstrong Date: Wed, 21 Feb 2018 00:26:45 +0000 (-0800) Subject: Merge branch 'master' into jobs/system_administration X-Git-Url: https://git.donarmstrong.com/?a=commitdiff_plain;h=4418e9b91337c8eac1d8e0b864798243a114efd6;p=resume.git Merge branch 'master' into jobs/system_administration --- 4418e9b91337c8eac1d8e0b864798243a114efd6 diff --cc dla-resume.org index 3be15a0,9604e25..c024aae --- a/dla-resume.org +++ b/dla-resume.org @@@ -1,69 -1,53 +1,65 @@@ #+OPTIONS: ^:nil #+OPTIONS: toc:nil #+TITLE: Resume - #+AUTHOR: Don Armstrong + #+AUTHOR: Don L. Armstrong #+LATEX_CMD: xelatex #+LATEX_CLASS: dlaresume - #+LATEX_CLASS_OPTIONS: [breaklinks] - - #+BEGIN_EXPORT latex - \begin{minipage}[t]{0.4\textwidth} - \begin{minipage}[c][0.6in]{2.3in} - {\color{headings}\fontsize{24pt}{24pt}\selectfont {\textsc{\textbf{\myauthor}}}} - {\footnotesize - \href{mailto:\myemail}{\myemail} \hfill - +1~714-813-8531 \\ - {\centering \href{\myweb}{\myweb} - \href{https://github.com/dondelelcaro}{https://github.com/dondelelcaro} - } - } - \vfill - \end{minipage} - \hfill - \begin{minipage}[t]{0.0in} - % dummy (needed here) - \end{minipage} - % \medskip - % Address and contact block - \hfill - \begin{minipage}[c][0.6in]{0.6in} - \href{https://dla2.us/res}{\qrcode[tight,level=L,nolink,height=0.6in]{https://dla2.us/res}} - \end{minipage} - \vspace{1em} - #+END_EXPORT + # #+LATEX_CLASS_OPTIONS: [10pt,breaklinks] + * Experience ++** Debian Developer \hfill 2004--Present +++ \emph{Debian Project}, Developer; Technical Committee ++ Member (2010--2016), Technical Committee Chair (2015--2016). ++** Independent Systems Administrator \hfill 2004--Present +++ Developing and designing software and hardware ++ requirements. Deploying and maintaining enterprise-level systems for ++ web, email, and data storage backends using MySQL and other ++ solutions. + ** 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 - ** University of California, Riverside - + *PhD* in Cell, Molecular and Developmental Biology - + *BS* in Biology + ** 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 +** Programming Languages + + [[http://r-project.org][R]], [[http://www.perl.org][Perl]], sh (bash, POSIX, and zsh), SQL, PL/SQL, C/C++, HTML, CSS, + javascript +** Applications and Daemons + + Web: apache, ngix, varnish, REST, SOAP + + SQL servers: PostgreSQL, MySQL (including failover and replication) + + VCS: git, subversion + + Mail: postfix, exim, sendmail, spamassassin + + Configuration Infrastructure: puppet, etckeeper, git + + Documentation: \LaTeX, emacs, MarkDown, MediaWiki, ikiwiki, trac + + Monitoring: munin, nagios, icinga, prometheus + + Issue Tracking: Debbugs, Request Tracker, Trac + + Statistics: R, SAS + + Office Software: Gnumeric, Libreoffice, \LaTeX, Word, Excel, + Powerpoint + + Virtualization libvirt, KVM, qemu, VMware +** Networking + + Hardware, Linux routing and firewall experience, ferm, DHCP, + openvpn, bonding, NAT. DNHS, SNMP, IPv4, and IPv6. +** Operating systems + + GNU/Linux (Debian, Ubuntu, Red Hat) + + Windows (5.0-10) + + MacOS (10-10.13) ** Statistics -+ Statistical modeling (regression, inference, prediction, and - learning in very large (> 1TB) datasets) -+ Addressing confounders and batch effects -# + Reproducible research + + Statistical modeling in very large datasets + + Addressing confounders and batch effects ** Big Data + Parallel and Cloud Computing (slurm, torque, AWS, OpenStack, Azure) + Inter-process communication: MPI, OpenMP @@@ -78,41 -71,11 +74,12 @@@ record + Strong verbal and presentation skills as evidenced by presentation and teaching record + - #+BEGIN_EXPORT latex - \end{minipage} - \hfill - \begin{minipage}[t]{0.0in} - % dummy (needed here) - \end{minipage} - \medskip - \hfill - \begin{minipage}[t]{0.55\textwidth} - - #+END_EXPORT - * Experience - ** Debian Developer - + 2004--Present. \emph{Debian Project}, Developer; Technical Committee - Member (2010--2016), Technical Committee Chair (2015--2016). - ** Independent Systems Administrator - + 2004--Present. Developing and designing software and hardware - requirements. Deploying and maintaining enterprise-level systems for - web, email, and data storage backends using MySQL and other - solutions. - ** 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. Developing and deploying systems to identify clinically - relevant 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. + # ** 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]]