*.bcf
*.blg
*.run.xml
-dla-resume.pdf
-dla-resume.tex
-dla-resume.fls
-dla-resume.txt
+don_armstrong_resume.pdf
+don_armstrong_resume.tex
+don_armstrong_resume.fls
+don_armstrong_resume.txt
references.bib
EMACS=emacs
-all: dla-resume.pdf
+all: don_armstrong_resume.pdf
-# dla-resume.pdf: dla-resume.tex $(wildcard *.bib)
+# don_armstrong_resume.pdf: don_armstrong_resume.tex $(wildcard *.bib)
# latexmk -pdf -pdflatex="xelatex -interaction=nonstopmode" -bibtex -use-make $<
-dla-resume.pdf: dla-resume.org dlaresume.cls
+don_armstrong_resume.pdf: don_armstrong_resume.org dlaresume.cls
$(EMACS) $(EMACSARGS) --visit $< \
--eval "(setq org-latex-remove-logfiles nil)" \
--funcall org-latex-export-to-pdf
+++ /dev/null
-#+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.
-
-
-
--- /dev/null
+#+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.
+
+
+
projects / resume.git / commitdiff