Samantha Zarate
Lead Of Sequencing Informatics Research
Baltimore, Maryland, United States
Summary
👤
Senior🎓
Top SchoolSamantha Zarate is a computational genomics leader with ~10 years of experience bridging research and production-scale sequencing informatics, currently leading Sequencing Informatics Research at Regeneron. Trained at Stanford and Johns Hopkins (PhD candidate in Mike Schatz’s lab), she has deep expertise in variant calling, large-scale realignment, and migrating datasets to new references—work that contributed to a co-first authored Science analysis of the T2T-CHM13 reference. Her background includes productizing bioinformatics tools at DNAnexus, developing features for DeepVariant at Google Health, and scaling analyses for hundreds of thousands of exomes at Regeneron. She combines hands-on algorithm and pipeline development with teaching and documentation experience, and has a track record of making complex genomics methods reproducible and cloud-ready. An under-the-radar strength is her ability to translate bleeding-edge reference and variant-calling advances into practical, enterprise-ready workflows used by large genomic centers.
10 years of coding experience
5 years of employment as a software developer
Johns Hopkins UniversityBachelor's Degree, Biomedical Computation, Bachelor's Degree, Biomedical Computation at Stanford University
English, Spanish, Tagalog
Github Skills (51)
genome10
samtools10
sequencing10
bioinformatics10
genomics10
bcftools10
genetic8
dropbox-api8
wake-on-lan7
ansible-role7
science6
pem6
python6
cli5
depth5
Programming languages (8)
Github contributions (5)
slzarate/slzarate.github.io
Mar 2019 - Apr 2023
Contributions:43 pushes, 1 branch in 4 years 1 month
slzarate/parliament2
Jun 2020 - Nov 2021
Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
Contributions:1 release, 60 commits, 20 pushes in 1 year 5 months
combinationgenomewhole-genome-sequencingcallssequencing-data
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