Experience

Invitae

• United States
• Biotechnology Research
• 700 & Above Employee

• Head of Scientific Modeling

  • Jul 2019 - Feb 2022

  San Francisco, California Bringing advances in science and technology into systems and engines that can provide comprehensive genetic information for millions of patients.



Jungla Inc.

• United States
• Biotechnology Research

• CEO, Cofounder

  • Feb 2016 - Jul 2019

  San Francisco Bay Area We increasingly look to our genomes for answers. In our mission to ensure clinical genetic testing delivers comprehensive genetic information, Jungla develops clinical platforms with tightly integrated cellular and computational modeling. (Jungla was acquired by Invitae Corporation in 2019.)



Stanford University

• United States
• Higher Education
• 700 & Above Employee

• Postdoctoral Researcher in Genomics & Biophysics

  • Jun 2011 - Jun 2016

  San Francisco Bay Area (1) Developed novel, proprietary methods for the analysis of large-scale genomic sequence data and demonstrated their utility in the discovery of cancer-driving alterations across a wide range of molecular functions and cancer types. (2) Characterized structural, functional, epistatic, and evolutionary consequences and determinants of affinity and kinetics in >10 Million RNAs assayed on a high-throughput sequencing instrument hacked for high-throughput biophysics and biochemistry… Show more (1) Developed novel, proprietary methods for the analysis of large-scale genomic sequence data and demonstrated their utility in the discovery of cancer-driving alterations across a wide range of molecular functions and cancer types. (2) Characterized structural, functional, epistatic, and evolutionary consequences and determinants of affinity and kinetics in >10 Million RNAs assayed on a high-throughput sequencing instrument hacked for high-throughput biophysics and biochemistry. Decomposed binding energy contributions from primary and secondary structure, uncovering differences in affinity driven by sequence-specific changes in association rates, and characterized the biophysical constraints underpinning molecular evolution. (3) Led the construction of genome-wide, metazoan transcription factor networks with spatiotemporal-resolution blending large-scale genomics and organismal imaging methods to unravel regulatory processes controlling development. (4) Analyzed the activity of human, worm, and fly regulatory factors (RFs) across a variety of cell-types, developmental stages, or conditions revealing conserved properties of regulatory networks and a dramatic divergence in regulatory targeting of orthologous RFs. Show less



University of Washington

• United States
• Higher Education
• 700 & Above Employee

• Doctoral Researcher in Genome Sciences

  • Nov 2004 - Nov 2010

  Greater Seattle Area (1) Invented and co-developed technologies for high-throughput analysis of protein function — coupling mutagenesis, selection, and next-generation sequencing. Termed Deep Mutational Scanning (DMS) techniques, we applied these methods to in-depth analyses of molecular function including the identification of biophysical properties (such as thermodynamic stability) in large-scale assays of protein function. (2) Performed the first whole-genome sequencing of laboratory-evolved eukaryotes… Show more (1) Invented and co-developed technologies for high-throughput analysis of protein function — coupling mutagenesis, selection, and next-generation sequencing. Termed Deep Mutational Scanning (DMS) techniques, we applied these methods to in-depth analyses of molecular function including the identification of biophysical properties (such as thermodynamic stability) in large-scale assays of protein function. (2) Performed the first whole-genome sequencing of laboratory-evolved eukaryotes to characterize the single-nucleotide and structural variants underlying adaptation. (3) Analyzed nascent transcription via high-throughput sequencing revealing synthesis rates and the distribution of active RNA polymerases genome-wide in S. cerevisiae. (4) Analyzed defects in embryonic development in C. elegans using RNAi, fluorescent confocal microscopy, and automated lineage tracking. Show less