I am a bioinformatics scientist specializing in visualization of the latest genomic data, from long-read sequencing to structural variants. I did my PhD with Mike Schatz at Cold Spring Harbor Laboratory. Since then, I worked at DNAnexus, Google, and OMGenomics Labs (co-founded).
Entrepreneurial Projects
Circa
Built Circa 2.0, software for making genomic circos plots, with >900 paid customers and cited >200 times.
2017, 2024
OMGenomics YouTube Channel
Teaching bioinformatics on the OMGenomics YouTube channel to 45k subscribers.
2017-present
Projects at Google
DeepVariant
DeepVariant uses a convolutional neural network to call genetic variants. My work on DeepVariant improved performance, contributing to multiple wins in Precision FDA Truth Challenge v2.
2019-2023
DeepConsensus
Worked on DeepConsensus, which uses a transformer model for correcting DNA sequencing data. I led the v0.3 release which improved speed dramatically and enabled integration into PacBio's Revio instrument
2021-2023
PhD Projects
SK-BR-3 Project
Investigation of complex structural variants based on PacBio long-read sequencing of the cancer genome SK-BR-3.
Nattestad et al, 2018
Ribbon & SplitThreader
Intuitive visualization of long-read sequencing to investigate complex structural variants.
Nattestad et al, 2021
Assemblytics
Structural variant caller for assembly/genome alignment comparison. Cited over 350 times.
Nattestad et al, 2016
