Shivkumar Venkatasubrahmanyam
Staff Bioinformatics Scientist
San Francisco, California, United States
Summary
👤
Senior🎓
Top SchoolShivkumar Venkatasubrahmanyam is a Staff Bioinformatics Scientist with 14 years of experience applying statistical and probabilistic modeling to turn complex NGS and biological data into clinical-grade diagnostic inferences. At Karius he has driven the design, prototyping, and productionization of models and software for a first-to-market blood-based NGS test covering 1500+ pathogens, bridging early R&D and analytical validation. Trained at UCSF and Stanford with a PhD and postdoc in molecular biology and bioinformatics, he combines deep domain knowledge with hands-on implementation in Python, Cython/C, Jupyter, and SQL. He specializes in custom hierarchical, generative and phylogenetic models using EM, MCMC and quadrature methods, and balances rigorous validation with practical engineering practices like testing and documentation. Known for clear communication across teams, he brings a rare blend of experimental insight and production software craftsmanship to high-stakes clinical problems.
14 years of coding experience
4 years of employment as a software developer
BS, Biology, BS, Biology at Massachusetts Institute of TechnologyPhD, Molecular Biology, PhD, Molecular Biology at University of California, San FranciscoPostdoctoral Research, Bioinformatics, Postdoctoral Research, Bioinformatics at Stanford University
Github Skills (55)
filetype10
checker10
shell10
zsh10
cli10
vimscript9
tuple9
oh-my-zsh9
static-analysis9
cli-app9
python9
rails9
bash9
docker9
lint9
Programming languages (5)
Github contributions (5)
shvenkat/zsh-theme-dexter
Jul 2016 - Aug 2018
Contributions:18 commits, 25 pushes, 3 branches in 2 years
shvenkat/Eclipse-Markdown-Editor-Plugin
Mar 2012 - Mar 2014
Contributions:12 commits in 2 years
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