X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=dla-resume.org;h=d7091e357404d8b09924117750f622160c9ba983;hb=e9844420102328dd7998a024a9b8e1d159ff50fd;hp=2beb3c9047e1b8e14f4194d2ce6f7b143fc0d359;hpb=f6da83e15ba2e7935c9c0efb7a5453d0c968e7d4;p=resume.git diff --git a/dla-resume.org b/dla-resume.org index 2beb3c9..d7091e3 100644 --- a/dla-resume.org +++ b/dla-resume.org @@ -7,58 +7,88 @@ #+LATEX_CLASS_OPTIONS: [10pt,breaklinks] #+BEGIN_EXPORT latex - %% Name - \noindent{\Huge {\textsc{\textbf{\myauthor}}}} +\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} } + } + \vfill + \end{minipage} \hfill \begin{minipage}[t]{0.0in} % dummy (needed here) \end{minipage} - \medskip +% \medskip % Address and contact block \hfill - \begin{minipage}[t]{1.7in} - \flushright {\footnotesize - \myphone \\ - \href{mailto:\myemail}{\myemail} \\ - \href{\myweb}{\myweb}} + \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} - - \medskip - + \vspace{1em} #+END_EXPORT -#+BEGIN_EXPORT latex -\begin{minipage}[t]{0.33\textwidth} -#+END_EXPORT * Education ** UC Riverside -+ *PhD* in Cell, Molecular and Developmental Biology. July 2008. -+ *BS* in Biology. July 2001. ++ *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 - + Multiple testing and confounders - + Genetic epidemiology of human populations - + Modeling (GLM, ordered models, etc.) -** -omics - + DNA Methylation analysis in humans and non-model organisms - + RNA quantification and differential analysis using RNAseq and - arrays in humans and non-model organisms - + DNA variant calling and analysis in tens of thousands of samples ++ Statistical modeling (regression, inference, Bayesian and + frequentist approaches in very large (> 1TB) datasets) ++ 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++, assembly, sh - + Collaborative Development: git, issue tracking, testing harnesses - + Databases: Postgresql (PL/SQL), SQLite, Mysql -** 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 ++ Languages: perl, R, C, C++, python, groovy, assembly, sh, make ++ Collaborative Development: git, travis, continuous integration, + automated testing ++ Databases: Postgresql (PL/SQL), SQLite, Mysql ++ 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. #+BEGIN_EXPORT latex \end{minipage} + \hfill + \begin{minipage}[t]{0.0in} + % dummy (needed here) + \end{minipage} + \medskip \hfill -\begin{minipage}[t]{0.66\textwidth} +\begin{minipage}[t]{0.55\textwidth} #+END_EXPORT * Experience @@ -66,7 +96,7 @@ + 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. + 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, @@ -76,7 +106,7 @@ + 2010--2012. Identifying genes which are associated with Systemic Lupus Erythematosus using prior information and targeted trio-based studies. -** Debian Developer with the Debian Project +** Debian Developer + 2004--Present. \emph{Debian Project}, Developer; Technical Committee Member (2010--Present), Technical Committee Chair (2015--2016). * Authored Software @@ -87,13 +117,14 @@ 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 -+ 20 peer-reviewed refereed publications cited over 1700 times -+ Publication record in GWAS, expression analysis - -#+BEGIN_EXPORT latex -\end{minipage} -#+END_EXPORT +* 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 @@ -102,39 +133,17 @@ + 2015 Blue Waters Allocation Grant: *Making ancestral trees using Bayesian inference to identify disease-causing genetic variants* Role: Primary Investigator -+ BD2K Mentored Career Development Award: *Predicting individualized* - *chemotherapeutic treatment outcomes using large multi-omics and* - *clinical datasets* (K01 RFA-ES-16-002) (under review) Role: PI -+ *Mechanism of PR Resistance in Endometriosis* (R01 RFA-HD-16-036) - (under review) Role: Co-PI + *Tracking placenta and uterine funciton using urinary extracellular vesicles* (R21 - RFA-HD-16-037) (under review) Role: Key Personnel -+ *Molecular Transducers of Physical Activity Bioinformatics Center* - (U24 RFA-RM-15-012) (under review) Role: Key Personnel + RFA-HD-16-037) Role: Key Personnel + *NIAMS* R01-AR045650-04 *Genetics of Childhood Onset SLE* to Chaim O. Jacob. Role: Key Personnel -** Conference Awards -+ 2007 FOCIS Trainee Award -+ 2009 FOCIS Trainee Award ** Scholarships and Fellowships + 2001--2003: University of California, Riverside Doctoral Fellowship + 1997--2001: Regents of the University of California Scholarship. -* Service -** Consortiums -+ *H3A Bionet*: Generating workflows and cloud resources for - bioinformatics analysis as part of the H3 Africa consortium -+ *Psychiatric Genomics Consortium*: Identification of epigenetic - variants which are correlated with PTSD. -+ *SLEGEN*: System lupus erythematosus genetics consortium. -** Mentoring -+ *Laren Riesche*: Differential methylation of marmoset placentas - using RRBS. Statistical training and bioinformatics training - resulting in PhD in Nursing. 2016-2017. -+ *Christine Y. Chan*: Ancestral trees for disease predictions. 2016 -+ *[[https://developers.google.com/open-source/gsoc/2006/][Phillip Kern]]*: GUI for Debian's bug tracking system. -+ *[[https://gnome.org/opw/][Virginia King]]*: Improving documentation of Debian's Bug Tracking system. -** Reviewing -+ /Ad hoc/ reviewer for PLoS One. + +#+BEGIN_EXPORT latex +\end{minipage} +#+END_EXPORT