Sara Knaack
Scientist I In Computational Biology
Madison, Wisconsin, United States
Summary
👤
Senior🎓
Top SchoolSara Knaack is a computational biologist and Scientist I at the University of Wisconsin–Madison with nine years of experience applying quantitative, physics-trained analysis to gene regulation and single-cell genomics. She develops and applies computational methods for RNA-seq, ATAC-seq, ChIP-seq and Hi-C to infer regulatory networks across diverse biological contexts, from plant symbiosis to cancer and immunology. Her background as a Ph.D. experimental nuclear physicist informs rigorous experimental design, modeling, and attention to reproducibility and bias in high-throughput data. She is proficient in C/C++, MATLAB, R/Python ecosystems via Bioconductor/conda, and remote high-throughput computing, and routinely integrates public genomics resources like ENSEMBL, Phytozome and GEO. Sara is particularly interested in multi-ome single-cell technologies and leveraging statistical physics approaches to improve interpretation of complex assays. Colleagues value her cross-disciplinary fluency that bridges deep computational tooling with practical biological insight.
9 years of coding experience
1 year of employment as a software developer
Capstone Certificate in Bioinformatics, Biomathematics, Bioinformatics, and Computational Biology, Capstone Certificate in Bioinformatics, Biomathematics, Bioinformatics, and Computational Biology at University of Wisconsin-MadisonUniversity of Illinois Urbana-Champaign
English, German
Github Skills (38)
seq10
sequencing9
meta-analysis9
bioinformatics9
genomics9
rna-seq9
python-bindings9
population-genetics8
cran8
comparative-genomics8
single-cell-genomics8
taxonomy7
dia7
phylogenetics6
cromwell6
Programming languages (5)
Github contributions (5)
Roy-lab/Arboretum2.0
Oct 2016 - Feb 2021
Contributions:33 commits, 22 pushes, 1 branch in 4 years 5 months
Roy-lab/aggregateSignalMotifNet
Jun 2020 - Apr 2021
Contributions:6 pushes, 1 branch in 9 months
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