[[!meta title="Resumé"]]
# Experience
-## Team Lead Data Engineering at Ginkgo Bioworks 2022--Present
+## Team Lead Data Engineering at Ginkgo Bioworks 2022–Present
+ Lead and manged team of data engineers, system administrators,
statisticians, bioinformaticians, and scientists at the PhD level
working within the AgBio unit of Ginkgo Bioworks.
+ Key leadership role in successful merger of AgBio unit with Ginkgo,
including all relevant R&D business applications and data-adjacent
systems.
-## Team Lead Data Engineering at Bayer Crop Science 2018--2022
+
+## Team Lead Data Engineering at Bayer Crop Science 2018–2022
+ Hired, managed, and developed team of 5+ Data Engineers, Systems
Administrators, and Business Analysts working within the Biologics
R&D unit of Bayer Crop Science enabling data capture, data
spectrographic measurements
+ Established and developed network of internal and external contacts
for technical implementation of Bayer program goals.
-## Debian Developer 2004--Present
+
+## Debian Developer 2004–Present
+ Maintained, managed configurations, and resolved issues in multiple
packages written in R, perl, python, scheme, C++, and C.
+ Resolved technical conflicts, developed technical standards, and
million entries with web, REST, and SOAP interfaces.
+ Provided vendor-level support for complex systems integration issues
on Debian GNU/Linux systems.
-## Research Scientist at UIUC \hfill 2015--2017
+
+## Research Scientist at UIUC 2015–2017
+ Planning, design, organization, execution, and analysis of multiple
complex epidemiological studies involving epigenomics,
transcriptomics, and genomics of diseases of pregnancy and
scientific research, and modern statistical methodology.
+ Wrote software and designed relational databases using R, perl, C,
SQL, make, and very large computational systems ([Blue Waters](https://bluewaters.ncsa.illinois.edu/))
-## Postdoctoral Researcher at USC 2013--2015
+
+## Postdoctoral Researcher at USC 2013–2015
+ Design, execution, and analysis of an epidemiological study to
identify genomic variants associated with systemic lupus
erythematosus using targeted deep sequencing.
archive large datasets resulting from genomic sequencing.
+ Coordinated with clinicians, molecular biologists, and biologists to
produce analyses and major reports.
-## Postdoctoral Researcher at UCR 2010--2012
+
+## Postdoctoral Researcher at UCR 2010–2012
+ Executed and analyzed an epidemiological study to identify genomic
variants associated with systemic lupus erythematosus using prior
information and array based approaches in a trio and cross sectional
study of individuals from the Los Angeles and greater United States.
+ Wrote and maintained multiple software components to reproducibly
perform the analyses.
+
# Education
+ Doctor of Philosophy (PhD) in Cell, Molecular and Developmental Biology at UC Riverside
+ Batchelor of Science (BS) in Biology at UC Riverside
interns
+ Former chair of Debian's Technical Committee
+ Head developer behind https://bugs.debian.org
+
## Bioinformatics, Genomics, and Epigenomics
+ NGS and array-based Genomics and Epigenomics of complex human
diseases using RNA-seq, targeted DNA sequencing, RRBS, Illumina
+ Alignment, annotation, and variant calling using existing and custom
software, including GATK, bwa, STAR, and kallisto
+ Using evolutionary genomics to identify causal human variants
+
## Statistics
+ Statistical modeling (regression, inference, prediction, and machine
learning in very large (> 1TB) datasets) using R and python.
+ Correcting & experimental design to overcome multiple testing,
confounders, and batch effects (both Bayesian and frequentist)
+ Reproducible research
+
## Software Development
+ Languages: python, R, perl, C, C++, python, groovy, sh (bash, POSIX,
and zsh), make
Aha!, continuous integration & deployment, automated testing
+ Web, Mobile: Shiny, jQuery, JavaScript
+ Databases: Postgresql (PL/SQL), SQLite, Mysql, NoSQL
+
## Big Data
+ Parallel and Cloud Computing (slurm, torque, AWS, OpenStack, Azure)
+ Inter-process communication: MPI, OpenMP
+ Filestorage: Gluster, CEFS, GPFS, Lustre
+ Linux system administration
+
## Applications and Daemons
+ Web: apache, ngix, varnish (load balancing/caching), REST, SOAP,
Tomcat
+ Issue Tracking: Debbugs, Request Tracker, Trac, JIRA
+ Office Software: Gnumeric, Libreoffice, \LaTeX, Word, Excel,
Powerpoint
+
## 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
+ MacOS
+
## Communication
+ Strong written communication skills as evidenced by publication
record
+ Strong verbal and presentation skills as evidenced by presentation,
leadership, and teaching record
+
# Authored Open Source Software
+ *[Debbugs](http://bugs.debian.org)*: Bug tracking software for the Debian GNU/Linux
distribution.
Role: Key Personnel
## Scholarships and Fellowships
-+ 2001--2003: University of California, Riverside Doctoral Fellowship
-+ 1997--2001: Regents of the University of California Scholarship.
++ 2001–2003: University of California, Riverside Doctoral Fellowship
++ 1997–2001: Regents of the University of California Scholarship.
# Academic Information